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0.0.1 fixes

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Øystein Olav Skaar
Øystein Olav Skaar committed Jun 14, 2018
1 parent a429df3 commit 2aef3b232ba4430732cbbed419b2c779a7876c30
Showing with 2,410 additions and 1,785 deletions.
  1. +17 −22 DESCRIPTION
  2. +1 −1 LICENSE
  3. +3 −3 NAMESPACE
  4. +2 −2 NEWS.md
  5. +476 −326 R/basic_functions.R
  6. +4 −4 R/mcmc.R
  7. +112 −113 R/mcmc_misc.R
  8. +162 −136 R/plotdata.R
  9. +23 −21 R/settings.R
  10. +39 −40 R/stats_bernoulli.R
  11. +19 −19 R/stats_covariate.R
  12. +48 −49 R/stats_fit.R
  13. +23 −26 R/stats_kappa.R
  14. +0 −1 R/stats_metric.R
  15. +29 −30 R/stats_nominal.R
  16. +19 −20 R/stats_regression.R
  17. +26 −29 R/stats_softmax.R
  18. +80 −61 README.md
  19. +0 −4 man/AddNames.Rd
  20. +0 −4 man/CapWords.Rd
  21. +8 −0 man/ComputeHDI.Rd
  22. +0 −4 man/DistinctColors.Rd
  23. +36 −0 man/FileName.Rd
  24. +43 −0 man/FlattenList.Rd
  25. +1 −5 man/GammaDist.Rd
  26. +16 −21 man/GetRange.Rd
  27. +0 −4 man/Interleave.Rd
  28. +0 −17 man/IsString.Rd
  29. +1 −4 man/MergeMCMC.Rd
  30. +3 −7 man/Normalize.Rd
  31. +0 −4 man/PadVector.Rd
  32. +0 −4 man/PaperSize.Rd
  33. +0 −4 man/ParseNumber.Rd
  34. +124 −0 man/ParsePlot.Rd
  35. +30 −7 man/PlotData.Rd
  36. +11 −1 man/ReadFile.Rd
  37. +0 −4 man/RemoveEmpty.Rd
  38. +0 −4 man/RemoveSpaces.Rd
  39. +1 −4 man/RunMCMC.Rd
  40. +0 −33 man/SaveName.Rd
  41. +0 −50 man/SavePlot.Rd
  42. +29 −0 man/SingleString.Rd
  43. +22 −25 man/StatsBernoulli.Rd
  44. +13 −13 man/StatsCovariate.Rd
  45. +0 −3 man/StatsFit.Rd
  46. +4 −9 man/StatsKappa.Rd
  47. +0 −3 man/StatsMetric.Rd
  48. +6 −7 man/StatsNominal.Rd
  49. +0 −3 man/StatsRegression.Rd
  50. +7 −10 man/StatsSoftmax.Rd
  51. +0 −4 man/SumToZero.Rd
  52. +0 −4 man/Trim.Rd
  53. +0 −4 man/TrimSplit.Rd
  54. +0 −7 man/VectorSub.Rd
  55. +9 −7 man/bfw.Rd
  56. +0 −2 vignettes/.gitignore
  57. +0 −181 vignettes/fit_data.md
  58. +184 −0 vignettes/fit_latent_data.md
  59. +368 −0 vignettes/fit_observed_data.md
  60. +224 −231 vignettes/metric.md
  61. +84 −84 vignettes/plot_data.md
  62. +103 −100 vignettes/regression.md
@@ -6,33 +6,28 @@ Authors@R: person( "Øystein Olav","Skaar", email="bayesianfw@gmail.com", role=c
Maintainer: Øystein Olav Skaar <bayesianfw@gmail.com>
URL: https://github.com/oeysan/bfw/
BugReports: https://github.com/oeysan/bfw/issues/
Description: Derived from the work of Kruschke (2015), the present package aim
to provide a framework for conducting Bayesian analysis using
Markov chain Monte Carlo (MCMC) sampling utilizing the Just Another
Gibbs Sampler ("JAGS", Plummer, 2003). The initial version include
several modules for conducting Bayesian equivalents of chi-squared tests,
analysis of variance (ANOVA), multiple (hierarchical) regression,
and for fitting data (e.g., structural equation modeling).
Description: Derived from the work of Kruschke (2015, <ISBN:9780124058880>),
the present package aim to provide a framework for conducting Bayesian
analysis using Markov chain Monte Carlo (MCMC)'' sampling utilizing the
Just Another Gibbs Sampler ("JAGS", Plummer, 2003, <http://mcmc-jags.sourceforge.net/>).
The initial version include several modules for conducting Bayesian
equivalents of chi-squared tests, analysis of variance (ANOVA),
multiple (hierarchical) regression, softmax regression, and for fitting data
(e.g., structural equation modeling).
SystemRequirements: JAGS >=4.3.0 <http://mcmc-jags.sourceforge.net/>,
Java JDK >=1.4 <https://www.java.com/en/download/manual.jsp>
Java JDK >=1.4 <https://www.java.com/en/download/manual.jsp>
Depends: R (>= 3.4.0),
Imports: plyr (>= 1.8.4),
methods (>= 3.5.0),
MASS (>= 7.3-47),
pbapply (>= 1.3-4),
ReporteRs (>= 0.8.9),
coda (>= 0.19-1),
psych (>= 1.7.8),
rJava (>= 0.9-9),
runjags (>= 2.0.4-2),
ggplot2 (>= 2.2.1),
scales (>= 0.5.0),
truncnorm (>= 1.0-8),
robust (>= 0.4-18),
lavaan (>= 0.6-1)
Imports: plyr (>= 1.8.4), methods (>= 3.5.0), MASS (>= 7.3-47), pbapply
(>= 1.3-4), ReporteRs (>= 0.8.9), coda (>= 0.19-1), psych (>=
1.7.8), rJava (>= 0.9-9), runjags (>= 2.0.4-2), ggplot2 (>=
2.2.1), scales (>= 0.5.0), truncnorm (>= 1.0-8), robust (>=
0.4-18), lavaan (>= 0.6-1)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2018-06-13 09:55:29 UTC; Melkor
Author: Øystein Olav Skaar [aut, cre]
@@ -1,2 +1,2 @@
YEAR: 2018
COPYRIGHT HOLDER: �ystein Olav Skaar
COPYRIGHT HOLDER: Øystein Olav Skaar
@@ -6,26 +6,26 @@ export(ComputeHDI)
export(ContrastNames)
export(DiagMCMC)
export(DistinctColors)
export(FileName)
export(FlattenList)
export(GammaDist)
export(GetRange)
export(Interleave)
export(IsString)
export(JavaGarbage)
export(MatrixCombn)
export(MergeMCMC)
export(Normalize)
export(PadVector)
export(PaperSize)
export(ParseNumber)
export(ParsePlot)
export(PlotData)
export(ReadFile)
export(RemoveEmpty)
export(RemoveSpaces)
export(RunContrasts)
export(RunMCMC)
export(SaveName)
export(SavePlot)
export(SingleString)
export(StatsBernoulli)
export(StatsCovariate)
export(StatsFit)
@@ -2,7 +2,7 @@

* Initial launch with the following modules:
** Bernoulli trials
** Covariate estimations (including correlelation and Cronbach's alpha)
** Covariate estimations (including correlation and Cronbach's alpha)
** Fit data (e.g., SEM, CFA, mediation models)
** Bayesian equivalent of Cohen's kappa
** Mean and standard deviation estimations
@@ -12,4 +12,4 @@
** Softmax regression (i.e., multinomial logistic regression)
* Added a `NEWS.md` file to track changes to the package.
* Added a `TODO.md` file to track future work on the package.
* Added a `README.md` file as an introduction to the package.
* Added a `README.md` file as an introduction to the package.
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