LaTeX_Tutorial_CPT_PSP

LaTeX tutorial for the standardization and automation of population analysis reports.

To cite this work please read and cite the article: https://doi.org/10.1002/psp4.12705

textblocks directory

Contains LaTeX source files that hold the actual content of the report, e.g., summary.tex, introduction.tex, etc.

data directory

Contains NONMEM input data set data_set_504.dat

license directory

Contains a text file holding GNU AFFERO GENERAL PUBLIC LICENSE

logo directory

Contains image file logo.png

nonmem directory

Contains 3 compressed (tar.gz) files containing NONMEM control streams and results for base model (No. 1117171), full covariate model (No. 1117172) and final model (No. 1117173)

Rfunctions directory

Contains 24 R functions needed to post-process NONMEM archives

Rresults directory

Includes subdirectories containing tables and plots belonging to the NONMEM analysis (output created by the 3 R scripts standard.plots.R, exploratory.R and postprocessing.R)

Rscripts directory

Contains 3 R scripts standard.plots.R (functions to create goodness-of-fit plots and summary tables for NONMEM runs), exploratory.R (descriptive statistics of PK samples and subjects, concentration versus time plots of raw data), and postprocessing.R (post-processing steps for NONMEM runs)

file .latexmkrc

(Hidden) configuration file for automated report compilation with latexmk

file extractrep.pl

Perl script completing the action of some of the R functions under Rfunctions

file makereprt.pl

Perl script that retrieves the template files from a directory and renames them according to user input. Adapt the variable $LATEXTMPLDIR as explained in the paper.

file #report#.bib

Literature database file from which the reference list will be created by BibLaTeX and biber

file #report#.tex

The main source file (document environment) in which the titlepage, approval page, textblocks, behind-of-text displays, tables, and appendix get included

file #report#-appendix.tex

Source file of the appendix

file #report#-approval.tex

Source file of the approval page

file #report#-behindoftextdisplays.tex

Source file to include additional figures and tables behind the core sections of the report

file #report#-preamble.tex

Preamble, e.g., to define common macros to plot figures and tables, to define layout, fonts, page header and footer

file #report#-properties.tex

Defines the meta information, i.e., title, subtitle, author name, reviewer name, and other variables used by the other template files

file #report#-titlepage.tex

Source file of the titlepage

file myacronyms.tex

Definition of terms and symbols; used to create the list of acronyms and definition of terms

file sample.pdf

Example of the compiled report template