PD Modeling

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check-robust.yaml

.github/workflows/R-CMD-check.yaml

.github/workflows/check-standard.yaml

.github/workflows/pkgdown.yaml

.github/workflows/r.yml

.github/workflows/render-rmarkdown.yaml

.github/workflows/test-coverage.yaml

.gitignore

CODE_OF_CONDUCT.md

DESCRIPTION

LICENSE

NAMESPACE

NEWS.md R/NMapplyFilters.R R/NMcheckColnames.R R/NMcheckData.R R/NMcheckDataFile.R R/NMcode2R.R R/NMdataConf.R R/NMdata_utils.R R/NMexpandDoses.R R/NMextractDataFile.R R/NMextractText.R R/NMgenText.R R/NMinfo.R R/NMisNumeric.R R/NMorderColumns.R R/NMreadCov.R R/NMreadCsv.R R/NMreadExt.R R/NMreadInits.R R/NMreadParsText.R R/NMreadPhi.R R/NMreadSection.R R/NMreadShk.R R/NMreadTab.R R/NMreadTabSlow.R R/NMrelate.R R/NMrelateOne.R R/NMreplaceDataFile.R R/NMscanData.R R/NMscanInput.R R/NMscanMultiple.R R/NMscanTables.R R/NMstamp.R R/NMtransInp.R R/NMwriteData.R R/NMwriteSection.R R/NMwriteSectionOne.R R/addCor.R R/addParType.R R/addTAPD.R R/addTableStep.R R/cc.R R/checkColRow.R R/cl.R R/cleanSpaces.R R/colLabels.R R/compareCols.R R/deprecatedArg.R R/dims.R R/dt2mat.R R/editCharCols.R R/egdt.R R/filePathSimple.R R/findCovs.R R/findVars.R R/flagsAssign.R R/flagsCount.R R/fnAppend.R R/fnExtension.R R/getArgs.R R/getFilePaths.R R/getLines.R R/listMissings.R R/lstExtractTime.R R/mat2dt.R R/mergeCheck.R R/messageWrap.R R/reduceTables.R R/renameByContents.R R/searchColRow.R R/summary_NMdata.R R/tmpcol.R R/uniquePresent.R R/writeNMinfo.R R/zzz.R README.Rmd README.md

_pkgdown.yml

codecov.yml

devel/CheatSheet.R

devel/CheatSheet.csv

devel/Cheatsheet1.pptx

devel/NMctlBlocks.R devel/NMdata-cheat_dropped.Rmd

devel/NMdata_Rpackage/NMdata_Rpackage-woven.tex

devel/NMdata_Rpackage/NMdata_Rpackage.Rmd devel/NMdata_Rpackage/NMdata_Rpackage.md

devel/NMdata_Rpackage/NMdata_Rpackage.tex

devel/NMdata_Rpackage/NMdata_Rpackage_072.pdf

devel/NMdata_Rpackage/badges_snip.PNG

devel/NMdata_Rpackage/badges_snip_210623.PNG

devel/NMdata_Rpackage/example_NMinfo.R

devel/NMdata_Rpackage/figures/ideabulb.jpg

devel/NMdata_Rpackage/figures/nmdata_mpn_2022-06-27 22-03-35.png

devel/NMdata_Rpackage/figures/worksign.png

devel/NMdata_Rpackage/image_2021_06_07T20_32_08_398Z.png

devel/NMdata_Rpackage/plots/aplot-1.pdf devel/NMdata_Rpackage/plots/aplot-plot-1.pdf

devel/NMdata_Rpackage/plots/aplot-plot-1.png

devel/NMdata_Rpackage/plots/comparemodels-plot-1.pdf

devel/NMdata_Rpackage/plots/comparemodels-plot-1.png

devel/NMdata_Rpackage/plots/compmodels-1.pdf devel/NMdata_Rpackage/plots/ggIndProfs-1.pdf devel/NMdata_Rpackage/plots/unnamed-chunk-29-1.pdf devel/NMdata_Rpackage/plots/unnamed-chunk-30-1.pdf devel/NMdata_Rpackage/plots/unnamed-chunk-32-1.pdf devel/NMdata_Rpackage/plots/unnamed-chunk-33-1.pdf devel/NMdata_Rpackage/plots/unnamed-chunk-34-1.pdf

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devel/NMscanData_ex_poster.R devel/README_MD_backup.md devel/README_RMD_candidate.rmd devel/addTad_comparisons.R

devel/cheatsheet.css

devel/check_package.R devel/examples_mergeCheck.R devel/getFindings.R devel/minimal_workflow.R devel/overview_function_tags.R devel/parameters_saem.R devel/read_lst_time.R devel/run_models.R devel/scripts/check_NMdata.R devel/scripts/correct_lsts.R devel/scripts/dsCreate_1.R devel/scripts/dsCreate_2_MAD.R devel/scripts/dsCreate_3_PRED.R devel/scripts/dsCreate_4_simCovs.R devel/scripts/overview_examples.R devel/tab_vars.R devel/test_devel_datatable.R

devel/todo.org

devel/vignette_NMscanData_dt.Rmd devel/vignettes/dscreate.Rmd devel/vignettes/programming.Rmd devel/vignettes_compile.R

inst/WORDLIST

inst/examples/data/data_documentation.R

inst/examples/data/mad.rds

inst/examples/data/xgxr001.csv

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inst/examples/data/xgxr2.rds

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inst/examples/data/xgxr2_flag0.rds

inst/examples/data/xgxr2_flag0_meta.txt

inst/examples/data/xgxr2_flag0_nocolnames.csv

inst/examples/data/xgxr2_flag0_nocolnames.rds

inst/examples/data/xgxr2_flag0_nocolnames_meta.txt

inst/examples/data/xgxr2_meta.txt

inst/examples/data/xgxr4.csv

inst/examples/data/xgxr4.rds

inst/examples/nonmem/input.txt

inst/examples/nonmem/output.txt

inst/examples/nonmem/xgxr001.lst

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inst/examples/nonmem/xgxr132.coi

inst/examples/nonmem/xgxr132.cor

inst/examples/nonmem/xgxr132.cov

inst/examples/nonmem/xgxr132.ext

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inst/examples/nonmem/xgxr132.mod

inst/examples/nonmem/xgxr132.msf

inst/examples/nonmem/xgxr132.shk

inst/examples/nonmem/xgxr132_ETAS.msf

inst/examples/nonmem/xgxr132_etas.txt

inst/examples/nonmem/xgxr132_res.txt

inst/examples/nonmem/xgxr133.cov

inst/examples/nonmem/xgxr133.ext

inst/examples/nonmem/xgxr133.lst

inst/examples/nonmem/xgxr133.mod

inst/examples/nonmem/xgxr133.shk

man/NMapplyFilters.Rd man/NMcheckColnames.Rd man/NMcheckData.Rd man/NMcheckDataFile.Rd man/NMcode2R.Rd man/NMdataConf.Rd man/NMdataConfOptions.Rd man/NMdataDecideOption.Rd man/NMdataGetOption.Rd man/NMdataOperations.Rd man/NMexpandDoses.Rd man/NMextractDataFile.Rd man/NMextractText.Rd man/NMgenText.Rd man/NMinfo.Rd man/NMisNumeric.Rd man/NMorderColumns.Rd man/NMreadCov.Rd man/NMreadCsv.Rd man/NMreadExt.Rd man/NMreadInits.Rd man/NMreadParsText.Rd man/NMreadPhi.Rd man/NMreadSection.Rd man/NMreadShk.Rd man/NMreadTab.Rd man/NMreadTabSlow.Rd man/NMrelate.Rd man/NMreplaceDataFile.Rd man/NMscanData.Rd man/NMscanInput.Rd man/NMscanMultiple.Rd man/NMscanTables.Rd man/NMstamp.Rd man/NMtransInp.Rd man/NMwriteData.Rd man/NMwriteSection.Rd man/addCor.Rd man/addOmegaCorr.Rd man/addTAPD.Rd man/cc.Rd man/checkColRow.Rd man/cl.Rd man/cleanSpaces.Rd man/colLabels.Rd man/compareCols.Rd man/count_ij.Rd man/deprecatedArg.Rd man/dims.Rd man/dt2mat.Rd man/editCharCols.Rd man/egdt.Rd

man/figures/NMdata_logo_v01.png

man/figures/README-NMscanData-example1-1.png

man/figures/README-NMscanData-example1-plot-1.png

man/figures/README-NMscanMultiple-plot-1.png

man/figures/README-unnamed-chunk-2-1.png

man/figures/apple-touch-icon-180x180.png

man/figures/cheatsheet_icon_0010.png

man/figures/logo.png

man/figures/logo.svg

man/filePathSimple.Rd man/findCovs.Rd man/findVars.Rd man/flagsAssign.Rd man/flagsCount.Rd man/fnAppend.Rd man/fnExtension.Rd man/getArgs.Rd man/getFilePaths.Rd man/getLines.Rd man/initsToExt.Rd man/is.NMdata.Rd man/itriag.Rd man/jtriag.Rd man/listMissings.Rd man/lstExtractTime.Rd man/mat2dt.Rd man/mergeCheck.Rd man/messageWrap.Rd man/print.summary_NMdata.Rd man/reduceTables.Rd man/renameByContents.Rd man/searchColRow.Rd man/splitFields.Rd man/summary.NMdata.Rd man/tmpcol.Rd man/triagSize.Rd man/unNMdata.Rd man/uniquePresent.Rd man/writeNMinfo.Rd

pkgdown/extra.css

pkgdown/extra.js

pkgdown/favicon/apple-touch-icon-120x120.png

pkgdown/favicon/apple-touch-icon-152x152.png

pkgdown/favicon/apple-touch-icon-180x180.png

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pkgdown/favicon/apple-touch-icon.png

pkgdown/favicon/favicon-16x16.png

pkgdown/favicon/favicon-32x32.png

pkgdown/favicon/favicon.ico

tests/spelling.R tests/testthat.R tests/testthat/testData/data/data_documentation.R

tests/testthat/testData/data/input_data_debug.csv

tests/testthat/testData/data/input_data_debug2.csv

tests/testthat/testData/data/mad.rds

tests/testthat/testData/data/pred_data1.csv

tests/testthat/testData/data/pred_data1.rds

tests/testthat/testData/data/pred_data1_meta.txt

tests/testthat/testData/data/sims1_for_minmodel_insPK.csv

tests/testthat/testData/data/sims1_for_minmodel_insPK_mod.csv

tests/testthat/testData/data/xgxr001.csv

tests/testthat/testData/data/xgxr1.csv

tests/testthat/testData/data/xgxr1_flag0.csv

tests/testthat/testData/data/xgxr2.csv

tests/testthat/testData/data/xgxr2.fst

tests/testthat/testData/data/xgxr2.rds

tests/testthat/testData/data/xgxr2_flag0.csv

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tests/testthat/testData/data/xgxr2_flag0_meta.txt

tests/testthat/testData/data/xgxr2_flag0_nocolnames.csv

tests/testthat/testData/data/xgxr2_flag0_nocolnames.rds

tests/testthat/testData/data/xgxr2_flag0_nocolnames_meta.txt

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vignettes/NMdata-cheat.html

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