diff --git a/.Rbuildignore b/.Rbuildignore index 7c1d4ed..cbf35f3 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -1,9 +1,2 @@ visual_test -*.out -*.log -*.fdb_latexmk -*.blg -*.bbl -*.aux -*.gz -*.toc + diff --git a/R/GOsummaries.R b/R/GOsummaries.R index 0f16251..234172e 100644 --- a/R/GOsummaries.R +++ b/R/GOsummaries.R @@ -1005,7 +1005,7 @@ customize = function(p, par){ #' differential expression it draws the boxplot of expression values. #' #' @param x a gosummaries object -#' @param components names of the gosummaries components to draw. +#' @param components index for the components to draw. #' @param classes name of the variable from annotation data.frame that defines the colors in the plot #' @param panel_plot plotting function for panel #' @param panel_customize customization function for the panel plot, menat for making diff --git a/inst/doc/GOsummaries-basics.Rnw b/inst/doc/GOsummaries-basics.Rnw index 1b60ed2..cf312a0 100644 --- a/inst/doc/GOsummaries-basics.Rnw +++ b/inst/doc/GOsummaries-basics.Rnw @@ -156,10 +156,29 @@ Using as id variables \end{figure} \subsection{Configuring the plot appearance} +The layout of the plot is fixed. However, it is still possible to configure some parameters. For example, the proportions of the panel area with parameters \texttt{panel\_height} and \texttt{panel\_width}. The unit for these measures is lines of text. Using these units keeps the proportions of the plot similar even if we change the \texttt{fontsize}. The panel height parameter is most useful if one wants to omit the panel area completely. Then one can set the \texttt{panel\_height} to 0. +The content of the panels is drawn by the function that is specified in the \texttt{panel\_plot} parameter. If one uses the built in functions, such as \texttt{gosummaries.prcomp}, \texttt{gosummaries.kmeans}, etc. then the most suitable panel drawing function is selected automatically. Without any expression data, only the number of genes is displayed in there. In case of PCA, we display projection of the values to the principal component as histogram. For clustering and differential expression we show the boxplots of the expression in different samples. Instead of boxplot, one can use also the violin plot (\texttt{panel\_violin}) or combination of boxplot and violin plot (\texttt{panel\_violin\_box}). +All the panel drawing functions basically generate a \texttt{ggplot2} plot based on the \texttt{Data} slot in a component of \texttt{gosummaires} object. From there we extract the plot area to display in panel and also the legend. In principle it is possible to define your own functions, as long as its input and output are match our functions and it conforms to the data in the \texttt{Data} slot in the components of \texttt{gosummaires} object. See the help of \texttt{panel\_boxplot} and the source of these functions for more information. -\bibliographystyle{plain} -\bibliography{references} +If one wants to make smaller changes to the panels, such as, change the colour scheme, then for this we have easier means than defining new panel function. With the parameter \texttt{panel\_customize} one can specify a function that modifies the plot created with the \texttt{panel\_plot} function. For example the default function \texttt{customize} looks like this. + +\begin{verbatim} +function(p, par){ + p = p + ggplot2::scale_fill_discrete(par$classes) + return(p) +} +\end{verbatim} + +To select a different colour scheme one can modify that function and and give it to the \texttt{plot.gosummaires} function. +\begin{verbatim} +cust = function(p, par){ + p = p + scale_fill_brewer(par$classes, type = "qual", palette = 2) + return(p) +} +plot(gs_kmeans, panel_plot = panel_violin, panel_customize = cust, +classes = "Tissue", components = 1:2) +\end{verbatim} \end{document} diff --git a/man/panel_boxplot.Rd b/man/panel_boxplot.Rd index 2807b25..29a693e 100644 --- a/man/panel_boxplot.Rd +++ b/man/panel_boxplot.Rd @@ -54,9 +54,6 @@ the data given in the Data slot of the gosummaries object. } -\examples{ -# Example1 -} \author{ Raivo Kolde } diff --git a/man/plot.gosummaries.Rd b/man/plot.gosummaries.Rd index 95d17a2..3651160 100644 --- a/man/plot.gosummaries.Rd +++ b/man/plot.gosummaries.Rd @@ -13,8 +13,7 @@ \arguments{ \item{x}{a gosummaries object} - \item{components}{names of the gosummaries components to - draw.} + \item{components}{index for the components to draw.} \item{classes}{name of the variable from annotation data.frame that defines the colors in the plot} diff --git a/man/plot.gosummaries.log b/man/plot.gosummaries.log deleted file mode 100644 index da48a69..0000000 --- a/man/plot.gosummaries.log +++ /dev/null @@ -1,2581 +0,0 @@ -This is pdfTeX, Version 3.1415926-1.40.10 (TeX Live 2009) (format=pdflatex 2010.6.29) 11 DEC 2012 12:02 -entering extended mode - file:line:error style messages enabled. - %&-line parsing enabled. -**plot.gosummaries.Rd -(./plot.gosummaries.Rd -LaTeX2e <2009/09/24> -Babel and hyphenation patterns for english, usenglishmax, dumylang, noh -yphenation, german-x-2009-06-19, ngerman-x-2009-06-19, ancientgreek, ibycus, ar -abic, basque, bulgarian, catalan, pinyin, coptic, croatian, czech, danish, dutc -h, esperanto, estonian, farsi, finnish, french, galician, german, ngerman, mono -greek, greek, hungarian, icelandic, indonesian, interlingua, irish, italian, ku -rmanji, latin, latvian, lithuanian, mongolian, mongolian2a, bokmal, nynorsk, po -lish, portuguese, romanian, russian, sanskrit, serbian, slovak, slovenian, span -ish, swedish, turkish, ukenglish, ukrainian, uppersorbian, welsh, loaded. -./plot.gosummaries.Rd:1: Undefined control sequence. -l.1 \name - {plot.gosummaries} -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - - -./plot.gosummaries.Rd:1: LaTeX Error: Missing \begin{document}. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.1 \name{p - lot.gosummaries} -You're in trouble here. Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:2: Undefined control sequence. -l.2 \alias - {plot.gosummaries} -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:4: Undefined control sequence. -l.4 \usage - { -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -./plot.gosummaries.Rd:5: Undefined control sequence. -l.5 \method - {plot}{gosummaries} (x, -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no = in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no [ in font nullfont! -Missing character: There is no 1 in font nullfont! -Missing character: There is no : in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no 1 in font nullfont! -Missing character: There is no 0 in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no ] in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no = in font nullfont! -Missing character: There is no N in font nullfont! -Missing character: There is no A in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:7: Missing $ inserted. - - $ -l.7 classes = NA, panel_ - plot = NULL, -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -LaTeX Font Info: External font `cmex10' loaded for size -(Font) <7> on input line 7. -LaTeX Font Info: External font `cmex10' loaded for size -(Font) <5> on input line 7. -./plot.gosummaries.Rd:13: Extra }, or forgotten $. -l.13 } - -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:14: Undefined control sequence. -l.14 \arguments - { -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - - -./plot.gosummaries.Rd:15: LaTeX Error: Command \item invalid in math mode. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.15 \item - {x}{a gosummaries object} -Try typing to proceed. -If that doesn't work, type X to quit. - - -./plot.gosummaries.Rd:15: LaTeX Error: Something's wrong--perhaps a missing \it -em. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.15 \item{ - x}{a gosummaries object} -Try typing to proceed. -If that doesn't work, type X to quit. - - -./plot.gosummaries.Rd:15: LaTeX Error: Something's wrong--perhaps a missing \it -em. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.15 \item{ - x}{a gosummaries object} -Try typing to proceed. -If that doesn't work, type X to quit. - - -./plot.gosummaries.Rd:15: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.15 \item{ - x}{a gosummaries object} -Try typing to proceed. -If that doesn't work, type X to quit. - -./plot.gosummaries.Rd:16: Missing $ inserted. - - $ -l.16 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:16: Missing } inserted. - - } -l.16 - -I've inserted something that you may have forgotten. -(See the above.) -With luck, this will get me unwedged. But if you -really didn't forget anything, try typing `2' now; then -my insertion and my current dilemma will both disappear. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 1--16 -[] - [] - - -Overfull \hbox (26.81677pt too wide) in paragraph at lines 1--16 -[]\OML/cmm/m/it/10 lot \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (114.52962pt too wide) in paragraph at lines 1--16 -\OML/cmm/m/it/10 NULL; panel[]ustomize \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (84.31122pt too wide) in paragraph at lines 1--16 -\OML/cmm/m/it/10 NULL; panel[]ar \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (89.44589pt too wide) in paragraph at lines 1--16 -\OML/cmm/m/it/10 list\OT1/cmr/m/n/10 ()\OML/cmm/m/it/10 ; panel[]eight \OT1/cmr -/m/n/10 = - [] - - -Overfull \hbox (68.45558pt too wide) in paragraph at lines 1--16 -\OT1/cmr/m/n/10 5\OML/cmm/m/it/10 ; panel[]idth \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (63.3121pt too wide) in paragraph at lines 1--16 -\OT1/cmr/m/n/10 30\OML/cmm/m/it/10 ; fontsize \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (75.06607pt too wide) in paragraph at lines 1--16 -\OT1/cmr/m/n/10 10\OML/cmm/m/it/10 ; term[]ength \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (96.98012pt too wide) in paragraph at lines 1--16 -\OT1/cmr/m/n/10 35\OML/cmm/m/it/10 ; wordcloud[]olors \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (153.20007pt too wide) in paragraph at lines 1--16 -\OML/cmm/m/it/10 c\OT1/cmr/m/n/10 ("\OML/cmm/m/it/10 grey\OT1/cmr/m/n/10 70"\OM -L/cmm/m/it/10 ; \OT1/cmr/m/n/10 "\OML/cmm/m/it/10 grey\OT1/cmr/m/n/10 10")\OML/ -cmm/m/it/10 ; filename \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (131.52933pt too wide) in paragraph at lines 1--16 -\OML/cmm/m/it/10 NA; :::\OT1/cmr/m/n/10 )[]$ - [] - - -./plot.gosummaries.Rd:17: LaTeX Error: Missing \begin{document}. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.17 \item{ - components}{names of the gosummaries components to -You're in trouble here. Try typing to proceed. -If that doesn't work, type X to quit. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 17--17 -[] - [] - - -./plot.gosummaries.Rd:17: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.17 \item{ - components}{names of the gosummaries components to -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no T in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no 1 in font nullfont! -Missing character: There is no : in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no . in font nullfont! - -./plot.gosummaries.Rd:21: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.21 \item{ - panel_plot}{plotting function for panel} -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:21: Missing $ inserted. - - $ -l.21 \item{panel_ - plot}{plotting function for panel} -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:21: Extra }, or forgotten $. -l.21 \item{panel_plot} - {plotting function for panel} -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:22: Missing $ inserted. - - $ -l.22 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (130.81624pt too wide) in paragraph at lines 21--22 -[]\OML/cmm/m/it/10 lot[]$ - [] - - -./plot.gosummaries.Rd:23: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.23 \item{ - panel_customize}{customization function for the -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:23: Missing $ inserted. - - $ -l.23 \item{panel_ - customize}{customization function for the -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:23: Extra }, or forgotten $. -l.23 \item{panel_customize} - {customization function for the -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:26: Missing $ inserted. - - $ -l.26 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (481.0047pt too wide) in paragraph at lines 23--26 -[]\OML/cmm/m/it/10 ustomize[]$ - [] - - -./plot.gosummaries.Rd:27: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.27 \item{ - panel_par}{list of arguments passed on to -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:27: Missing $ inserted. - - $ -l.27 \item{panel_ - par}{list of arguments passed on to -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:27: Extra }, or forgotten $. -l.27 \item{panel_par} - {list of arguments passed on to -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:28: Undefined control sequence. -l.28 \code - {panel_plot} function} -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -./plot.gosummaries.Rd:29: Missing $ inserted. - - $ -l.29 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (218.12164pt too wide) in paragraph at lines 27--29 -[]\OML/cmm/m/it/10 ar[]$ - [] - - -./plot.gosummaries.Rd:30: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.30 \item{ - panel_height}{panel height as number of lines, with -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:30: Missing $ inserted. - - $ -l.30 \item{panel_ - height}{panel height as number of lines, with -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:30: Extra }, or forgotten $. -l.30 \item{panel_height} - {panel height as number of lines, with -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:31: Undefined control sequence. -l.31 given \code - {fontsize}. If set to 0 no panel is drawn.} -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -./plot.gosummaries.Rd:32: Missing $ inserted. - - $ -l.32 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (359.72554pt too wide) in paragraph at lines 30--32 -[]\OML/cmm/m/it/10 eight[]$ - [] - - -./plot.gosummaries.Rd:33: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.33 \item{ - panel_width}{panel width in lines of text} -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:33: Missing $ inserted. - - $ -l.33 \item{panel_ - width}{panel width in lines of text} -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:33: Extra }, or forgotten $. -l.33 \item{panel_width} - {panel width in lines of text} -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:34: Missing $ inserted. - - $ -l.34 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (133.93591pt too wide) in paragraph at lines 33--34 -[]\OML/cmm/m/it/10 idth[]$ - [] - - -./plot.gosummaries.Rd:35: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.35 \item{ - fontsize}{font size used throughout the figure in -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no z in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no z in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! - -./plot.gosummaries.Rd:38: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.38 \item{ - term_length}{maximum length of the dispalyed GO -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no m in font nullfont! -./plot.gosummaries.Rd:38: Missing $ inserted. - - $ -l.38 \item{term_ - length}{maximum length of the dispalyed GO -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:38: Extra }, or forgotten $. -l.38 \item{term_length} - {maximum length of the dispalyed GO -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:41: Missing $ inserted. - - $ -l.41 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (442.9826pt too wide) in paragraph at lines 38--41 -[]\OML/cmm/m/it/10 ength[]$ - [] - - -./plot.gosummaries.Rd:42: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.42 \item{ - wordcloud_colors}{two element vector of colors to -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no w in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no d in font nullfont! -./plot.gosummaries.Rd:42: Missing $ inserted. - - $ -l.42 \item{wordcloud_ - colors}{two element vector of colors to -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:42: Extra }, or forgotten $. -l.42 \item{wordcloud_colors} - {two element vector of colors to -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:47: Missing $ inserted. - - $ -l.47 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (941.82088pt too wide) in paragraph at lines 42--47 -[]\OML/cmm/m/it/10 olors[]$ - [] - - -./plot.gosummaries.Rd:48: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.48 \item{ - filename}{file path where to save the picture. -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no v in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no F in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no C in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no : in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no j in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no E in font nullfont! -Missing character: There is no v in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no z in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no . in font nullfont! - -./plot.gosummaries.Rd:55: LaTeX Error: Lonely \item--perhaps a missing list env -ironment. - -See the LaTeX manual or LaTeX Companion for explanation. -Type H for immediate help. - ... - -l.55 \item{ - \dots}{not used} -Try typing to proceed. -If that doesn't work, type X to quit. - -Missing character: There is no . in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -./plot.gosummaries.Rd:57: Undefined control sequence. -l.57 \description - { -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -Missing character: There is no T in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no G in font nullfont! -Missing character: There is no O in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -./plot.gosummaries.Rd:59: Undefined control sequence. -l.59 \code - {gosummaries} object. The GOsummaries figure -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no j in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no T in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no G in font nullfont! -Missing character: There is no O in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no v in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no T in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no G in font nullfont! -Missing character: There is no O in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no O in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no . in font nullfont! -./plot.gosummaries.Rd:65: Undefined control sequence. -l.65 \details - { -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -Missing character: There is no I in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no I in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no D in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no j in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no j in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no z in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no O in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no v in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no z in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no P in font nullfont! -Missing character: There is no C in font nullfont! -Missing character: There is no A in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no . in font nullfont! -Missing character: There is no F in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no b in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no x in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no v in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no . in font nullfont! -./plot.gosummaries.Rd:75: Undefined control sequence. -l.75 \examples - { -The control sequence at the end of the top line -of your error message was never \def'ed. If you have -misspelled it (e.g., `\hobx'), type `I' and the correct -spelling (e.g., `I\hbox'). Otherwise just continue, -and I'll forget about whatever was undefined. - -Missing character: There is no d in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:76: Missing $ inserted. - - $ -l.76 data(gs_ - limma) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:77: Missing $ inserted. - - $ -l.77 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (33.24965pt too wide) in paragraph at lines 55--77 -[]\OML/cmm/m/it/10 imma\OT1/cmr/m/n/10 )$ - [] - -./plot.gosummaries.Rd:78: You can't use `macro parameter character #' in vertic -al mode. -l.78 # - Default plot -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no D in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:79: Missing $ inserted. - - $ -l.79 plot(gs_ - limma, fontsize = 8) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:80: Missing $ inserted. - - $ -l.80 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 78--80 -[] - [] - - -Overfull \hbox (82.67282pt too wide) in paragraph at lines 78--80 -[]\OML/cmm/m/it/10 imma; fontsize \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (8.88892pt too wide) in paragraph at lines 78--80 -\OT1/cmr/m/n/10 8)$ - [] - -./plot.gosummaries.Rd:81: You can't use `macro parameter character #' in vertic -al mode. -l.81 # - Omitting the panel area -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no O in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:82: Missing $ inserted. - - $ -l.82 plot(gs_ - limma, panel_height = 0, fontsize = 8) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:83: Missing $ inserted. - - $ -l.83 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 81--83 -[] - [] - - -Overfull \hbox (96.10452pt too wide) in paragraph at lines 81--83 -[]\OML/cmm/m/it/10 imma; panel[]eight \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (58.31209pt too wide) in paragraph at lines 81--83 -\OT1/cmr/m/n/10 0\OML/cmm/m/it/10 ; fontsize \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (8.88892pt too wide) in paragraph at lines 81--83 -\OT1/cmr/m/n/10 8)$ - [] - -./plot.gosummaries.Rd:84: You can't use `macro parameter character #' in vertic -al mode. -l.84 # - Selecting only certain components -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no S in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:85: Missing $ inserted. - - $ -l.85 plot(gs_ - limma, components = as.character(c(1, 3)), fontsize = 8) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:86: Missing $ inserted. - - $ -l.86 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 84--86 -[] - [] - - -Overfull \hbox (97.15366pt too wide) in paragraph at lines 84--86 -[]\OML/cmm/m/it/10 imma; components \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (143.22545pt too wide) in paragraph at lines 84--86 -\OML/cmm/m/it/10 as:character\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 c\OT1/cmr/m/n/10 - (1\OML/cmm/m/it/10 ; \OT1/cmr/m/n/10 3))\OML/cmm/m/it/10 ; fontsize \OT1/cmr/m -/n/10 = - [] - - -Overfull \hbox (8.88892pt too wide) in paragraph at lines 84--86 -\OT1/cmr/m/n/10 8)$ - [] - -./plot.gosummaries.Rd:87: You can't use `macro parameter character #' in vertic -al mode. -l.87 # - Cutting the longer terms shorter (see the effect on the right wordclo... -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no C in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:88: Missing $ inserted. - - $ -l.88 plot(gs_ - limma, term_length = 20) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:89: Missing $ inserted. - - $ -l.89 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 87--89 -[] - [] - - -Overfull \hbox (94.42679pt too wide) in paragraph at lines 87--89 -[]\OML/cmm/m/it/10 imma; term[]ength \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (13.88893pt too wide) in paragraph at lines 87--89 -\OT1/cmr/m/n/10 20)$ - [] - -./plot.gosummaries.Rd:90: You can't use `macro parameter character #' in vertic -al mode. -l.90 # - Change wordcloud colors -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no C in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no w in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:91: Missing $ inserted. - - $ -l.91 plot(gs_ - limma, term_length = 20, wordcloud_colors = c("#C6DBEF", "#0830... -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:91: You can't use `macro parameter character #' in math m -ode. -l.91 ... term_length = 20, wordcloud_colors = c("# - C6DBEF", "#08306B")) -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -./plot.gosummaries.Rd:91: You can't use `macro parameter character #' in math m -ode. -l.91 ...h = 20, wordcloud_colors = c("#C6DBEF", "# - 08306B")) -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -./plot.gosummaries.Rd:92: Missing $ inserted. - - $ -l.92 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 90--92 -[] - [] - - -Overfull \hbox (94.42679pt too wide) in paragraph at lines 90--92 -[]\OML/cmm/m/it/10 imma; term[]ength \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (96.98012pt too wide) in paragraph at lines 90--92 -\OT1/cmr/m/n/10 20\OML/cmm/m/it/10 ; wordcloud[]olors \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (118.80965pt too wide) in paragraph at lines 90--92 -\OML/cmm/m/it/10 c\OT1/cmr/m/n/10 ("\OML/cmm/m/it/10 C\OT1/cmr/m/n/10 6\OML/cmm -/m/it/10 DBEF\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 ; \OT1/cmr/m/n/10 "08306\OML/cmm -/m/it/10 B\OT1/cmr/m/n/10 "))$ - [] - -./plot.gosummaries.Rd:93: You can't use `macro parameter character #' in vertic -al mode. -l.93 # - Adjust panel plot type (see panel_boxplot help for options) -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no A in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no j in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -./plot.gosummaries.Rd:93: Missing $ inserted. - - $ -l.93 # Adjust panel plot type (see panel_ - boxplot help for options) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:95: Missing $ inserted. - - $ -l.95 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 93--95 -[] - [] - - -Overfull \hbox (173.16238pt too wide) in paragraph at lines 93--95 -[]\OML/cmm/m/it/10 oxplothelpforoptions\OT1/cmr/m/n/10 )\OML/cmm/m/it/10 data\O -T1/cmr/m/n/10 (\OML/cmm/m/it/10 gs[]means\OT1/cmr/m/n/10 )$ - [] - -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:96: Missing $ inserted. - - $ -l.96 plot(gs_ - kmeans, panel_plot = panel_violin, classes = "Tissue", componen... -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:98: Missing $ inserted. - - $ -l.98 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (109.55304pt too wide) in paragraph at lines 96--98 -[]$[]\OML/cmm/m/it/10 means; panel[]lot \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (96.14386pt too wide) in paragraph at lines 96--98 -\OML/cmm/m/it/10 panel[]iolin; classes \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (108.22656pt too wide) in paragraph at lines 96--98 -\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 Tissue\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 ; com -ponents \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (170.36684pt too wide) in paragraph at lines 96--98 -\OML/cmm/m/it/10 c\OT1/cmr/m/n/10 ("1"\OML/cmm/m/it/10 ; \OT1/cmr/m/n/10 "2"))\ -OML/cmm/m/it/10 plot\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 gs[]means; panel[]lot \OT -1/cmr/m/n/10 = - [] - - -Overfull \hbox (110.72302pt too wide) in paragraph at lines 96--98 -\OML/cmm/m/it/10 panel[]iolin[]ox; classes \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (108.22656pt too wide) in paragraph at lines 96--98 -\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 Tissue\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 ; com -ponents \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (50.43877pt too wide) in paragraph at lines 96--98 -\OML/cmm/m/it/10 c\OT1/cmr/m/n/10 ("1"\OML/cmm/m/it/10 ; \OT1/cmr/m/n/10 "2"))$ - - [] - -./plot.gosummaries.Rd:99: You can't use `macro parameter character #' in vertic -al mode. -l.99 # - Adjust colorscheme for plot (see customize help for more information) -Sorry, but I'm not programmed to handle this case; -I'll just pretend that you didn't ask for it. -If you're in the wrong mode, you might be able to -return to the right one by typing `I}' or `I$' or `I\par'. - -Missing character: There is no A in font nullfont! -Missing character: There is no d in font nullfont! -Missing character: There is no j in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no z in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no h in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no m in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no = in font nullfont! -Missing character: There is no f in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no i in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no = in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no + in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no c in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -./plot.gosummaries.Rd:101: Missing $ inserted. - - $ -l.101 p = p + scale_ - fill_brewer(par$classes, type = "qual", palette = 2) -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -Missing character: There is no c in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no s in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no y in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no = in font nullfont! -Missing character: There is no " in font nullfont! -Missing character: There is no q in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no " in font nullfont! -Missing character: There is no , in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no a in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no = in font nullfont! -Missing character: There is no 2 in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no e in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no u in font nullfont! -Missing character: There is no r in font nullfont! -Missing character: There is no n in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no ) in font nullfont! -Missing character: There is no p in font nullfont! -Missing character: There is no l in font nullfont! -Missing character: There is no o in font nullfont! -Missing character: There is no t in font nullfont! -Missing character: There is no ( in font nullfont! -Missing character: There is no g in font nullfont! -Missing character: There is no s in font nullfont! -./plot.gosummaries.Rd:104: Missing $ inserted. - - $ -l.104 plot(gs_ - kmeans, panel_plot = panel_violin, panel_customize = cust, cla... -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - -./plot.gosummaries.Rd:105: Extra }, or forgotten $. -l.105 } - -I've deleted a group-closing symbol because it seems to be -spurious, as in `$x}$'. But perhaps the } is legitimate and -you forgot something else, as in `\hbox{$x}'. In such cases -the way to recover is to insert both the forgotten and the -deleted material, e.g., by typing `I$}'. - -./plot.gosummaries.Rd:109: Missing $ inserted. - - $ -l.109 - -I've inserted a begin-math/end-math symbol since I think -you left one out. Proceed, with fingers crossed. - - -Overfull \hbox (20.0pt too wide) in paragraph at lines 99--109 -[] - [] - - -Overfull \hbox (64.12517pt too wide) in paragraph at lines 99--109 -[]\OML/cmm/m/it/10 ill[]rewer\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 par$ - [] - - -Overfull \hbox (89.55304pt too wide) in paragraph at lines 99--109 -[]\OML/cmm/m/it/10 means; panel[]lot \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (133.50662pt too wide) in paragraph at lines 99--109 -\OML/cmm/m/it/10 panel[]iolin; panel[]ustomize \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (64.86346pt too wide) in paragraph at lines 99--109 -\OML/cmm/m/it/10 cust; classes \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (108.22656pt too wide) in paragraph at lines 99--109 -\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 Tissue\OT1/cmr/m/n/10 "\OML/cmm/m/it/10 ; com -ponents \OT1/cmr/m/n/10 = - [] - - -Overfull \hbox (50.43877pt too wide) in paragraph at lines 99--109 -\OML/cmm/m/it/10 c\OT1/cmr/m/n/10 ("1"\OML/cmm/m/it/10 ; \OT1/cmr/m/n/10 "2"))$ - - [] - -) -! Emergency stop. -<*> plot.gosummaries.Rd - -*** (job aborted, no legal \end found) - - -Here is how much of TeX's memory you used: - 9 strings out of 493848 - 204 string characters out of 3149207 - 53936 words of memory out of 3000000 - 3384 multiletter control sequences out of 15000+200000 - 3640 words of font info for 14 fonts, out of 3000000 for 9000 - 714 hyphenation exceptions out of 8191 - 18i,4n,12p,134b,133s stack positions out of 5000i,500n,10000p,200000b,50000s -! ==> Fatal error occurred, no output PDF file produced!