Files in dlill/conveniencefunctions
Convenience Functions
.Rbuildignore
.gitattributes
.gitignore
04-Output/S201-Lucarelli-Petab-Model/LucarelliWithModel/LucarelliWithModel.yaml
04-Output/S201-Lucarelli-Petab-Model/LucarelliWithModel/model_LucarelliWithModel.rds
DESCRIPTION
Dockerfile
NAMESPACE
R/IQRtools.R
R/compare.R
R/d2d2dMod.R
R/dModAugmentation.R
R/dMod_doPlots.R
R/dMod_indiv.R
R/dMod_parameterHandling.R
R/dMod_sampling.R
R/dMod_wrappers.R
R/dModframetools.R
R/datatable.R
R/dplyrToDT.R
R/function_imports.R
R/isoboles.R
R/jODE.R
R/meld.R
R/mypublish.R
R/officer.R
R/outputting.R
R/plotting.R
R/print_mathematica_or_r.R
R/project_organization.R
R/rstudio-align_assign.R
R/rstudio-full_setup.R
R/rstudio-toggle_subsections.R
R/simplify.R
R/stringr.R
R/tidyversetools.R
R/todolist.R
R/tools.R
R/vscode.R
R/zzz.R
README.md
cfcompose.yml
compare trustl1 and trustlq.Rmd
conveniencefunctions.Rproj
docker-compose.yml
inst/Christmas-quiz/Christmas-quiz.txt
inst/effWordlist/eff_large_wordlist.txt
inst/exampleModels/SvenjasExample/01-ExampleData/ExampleData.csv
inst/exampleModels/SvenjasExample/02-Scripts/M00-ExampleModel.R
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/001-model.rds
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/e.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/e.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/e_deriv.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/e_deriv.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/g.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/g.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/g_deriv.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/g_deriv.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/p.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/p.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/p_deriv.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/p_deriv.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/x.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/x.o
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/x_s.c
inst/exampleModels/SvenjasExample/04-Output/M00-ExampleModel/01-Model/x_s.o
inst/examples/101-petab.py
inst/examples/CompiledObjects/Boehm_JProteomeRes2014.RData
inst/examples/CompiledObjects/Boehm_JProteomeRes2014.rds
inst/examples/CompiledObjects/Fujita_SciSignal2010.rds
inst/examples/CompiledObjects/P_Fujita_SciSignal2010.c
inst/examples/CompiledObjects/P_Fujita_SciSignal2010.o
inst/examples/CompiledObjects/P_Fujita_SciSignal2010_deriv.c
inst/examples/CompiledObjects/P_Fujita_SciSignal2010_deriv.o
inst/examples/CompiledObjects/P_enzymeKinetics.c
inst/examples/CompiledObjects/P_enzymeKinetics.o
inst/examples/CompiledObjects/P_enzymeKinetics_deriv.c
inst/examples/CompiledObjects/P_enzymeKinetics_deriv.o
inst/examples/CompiledObjects/enzymeKinetics.RData
inst/examples/CompiledObjects/enzymeKinetics.rds
inst/examples/CompiledObjects/errfn_Boehm_JProteomeRes2014.c
inst/examples/CompiledObjects/errfn_Boehm_JProteomeRes2014.o
inst/examples/CompiledObjects/errfn_Boehm_JProteomeRes2014_deriv.c
inst/examples/CompiledObjects/errfn_Boehm_JProteomeRes2014_deriv.o
inst/examples/CompiledObjects/errfn_enzymeKinetics.c
inst/examples/CompiledObjects/errfn_enzymeKinetics.o
inst/examples/CompiledObjects/errfn_enzymeKinetics_deriv.c
inst/examples/CompiledObjects/errfn_enzymeKinetics_deriv.o
inst/examples/CompiledObjects/g_Boehm_JProteomeRes2014.c
inst/examples/CompiledObjects/g_Boehm_JProteomeRes2014.o
inst/examples/CompiledObjects/g_Boehm_JProteomeRes2014_deriv.c
inst/examples/CompiledObjects/g_Boehm_JProteomeRes2014_deriv.o
inst/examples/CompiledObjects/g_Fujita_SciSignal2010.c
inst/examples/CompiledObjects/g_Fujita_SciSignal2010.o
inst/examples/CompiledObjects/g_Fujita_SciSignal2010_deriv.c
inst/examples/CompiledObjects/g_Fujita_SciSignal2010_deriv.o
inst/examples/CompiledObjects/g_enzymeKinetics.c
inst/examples/CompiledObjects/g_enzymeKinetics.o
inst/examples/CompiledObjects/g_enzymeKinetics_deriv.c
inst/examples/CompiledObjects/g_enzymeKinetics_deriv.o
inst/examples/CompiledObjects/odemodel_Boehm_JProteomeRes2014.c
inst/examples/CompiledObjects/odemodel_Boehm_JProteomeRes2014.o
inst/examples/CompiledObjects/odemodel_Boehm_JProteomeRes2014_s.c
inst/examples/CompiledObjects/odemodel_Boehm_JProteomeRes2014_s.o
inst/examples/CompiledObjects/odemodel_Fujita_SciSignal2010.c
inst/examples/CompiledObjects/odemodel_Fujita_SciSignal2010.o
inst/examples/CompiledObjects/odemodel_Fujita_SciSignal2010_s.c
inst/examples/CompiledObjects/odemodel_Fujita_SciSignal2010_s.o
inst/examples/CompiledObjects/odemodel_enzymeKinetics.c
inst/examples/CompiledObjects/odemodel_enzymeKinetics.o
inst/examples/CompiledObjects/odemodel_enzymeKinetics_s.c
inst/examples/CompiledObjects/odemodel_enzymeKinetics_s.o
inst/examples/S001-petab-export.R
inst/examples/S002-petab-fit.R
inst/examples/S011-petab-BenchmarkModels.R
inst/examples/S021-petab-EmptyReactants.R
inst/examples/S101-plotting.R
inst/examples/cf_indiv.R
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/.directory
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/Boehm_JProteomeRes2014.yaml
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/General_info.xlsx
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/d2d_plots.png
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/experimentalCondition_Boehm_JProteomeRes2014.tsv
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/measurementData_Boehm_JProteomeRes2014.tsv
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/model_Boehm_JProteomeRes2014.xml
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/observables_Boehm_JProteomeRes2014.tsv
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/parameters_Boehm_JProteomeRes2014.tsv
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/simulatedData_Boehm_JProteomeRes2014.tsv
inst/examples/petab/BenchmarkModels/Boehm_JProteomeRes2014/visualizationSpecification_Boehm_JProteomeRes2014.tsv
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/Elowitz_Nature2000.yaml
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/experimentalCondition_Elowitz_Nature2000.tsv
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/measurementData_Elowitz_Nature2000.tsv
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/model_Elowitz_Nature2000.xml
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/observables_Elowitz_Nature2000.tsv
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/parameters_Elowitz_Nature2000.tsv
inst/examples/petab/BenchmarkModels/Elowitz_Nature2000/simulatedData_Elowitz_Nature2000.tsv
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/Fujita_SciSignal2010.yaml
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/General_info.xlsx
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/d2d_plots.png
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/experimentalCondition_Fujita_SciSignal2010.tsv
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/measurementData_Fujita_SciSignal2010.tsv
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/model_Fujita_SciSignal2010.xml
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/observables_Fujita_SciSignal2010.tsv
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/parameters_Fujita_SciSignal2010.tsv
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/simulatedData_Fujita_SciSignal2010.tsv
inst/examples/petab/BenchmarkModels/Fujita_SciSignal2010/visualizationSpecification_Fujita_SciSignal2010.tsv
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/General_info.xlsx
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/Zheng_PNAS2012.yaml
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/experimentalCondition_Zheng_PNAS2012.tsv
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/measurementData_Zheng_PNAS2012.tsv
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/model_Zheng_PNAS2012.xml
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/model_Zheng_PNAS2012_old.xml
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/observables_Zheng_PNAS2012.tsv
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/parameters_Zheng_PNAS2012.tsv
inst/examples/petab/BenchmarkModels/Zheng_PNAS2012/simulatedData_Zheng_PNAS2012.tsv
inst/examples/petab/enzymeKinetics/enzymeKinetics.yaml
inst/examples/petab/enzymeKinetics/experimentalCondition_enzymeKinetics.tsv
inst/examples/petab/enzymeKinetics/measurementData_enzymeKinetics.tsv
inst/examples/petab/enzymeKinetics/model_enzymeKinetics.rds
inst/examples/petab/enzymeKinetics/model_enzymeKinetics.xml
inst/examples/petab/enzymeKinetics/observables_enzymeKinetics.tsv
inst/examples/petab/enzymeKinetics/parameters_enzymeKinetics.tsv
inst/examples_dMod/abc.R
inst/jODE/S001_01_Check_jODE_obects.jl
inst/jODE/S002_jODE_v1_Check_jODE_obects.jl
inst/jODE/S003_jODE_v2_developEventHandling.jl
inst/jODE/S998_build_faster_sysimg.jl
inst/jODE/S999_debug_gradient.jl
inst/jODE/jODE_v2_001_libraries.jl
inst/jODE/jODE_v2_002_fixed_functions.jl
inst/jODE/julia.json
inst/rstudio/addins.dcf
inst/setup_IQDesktop/Setup/OLD/IQDesktop1.2.2.yml
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inst/setup_IQDesktop/Setup/OLD/IQDesktop1.4.1.yml
inst/setup_IQDesktop/Setup/OLD/IQDesktoplatest.yml
inst/setup_IQDesktop/Setup/Resources/.gitconfig
inst/setup_IQDesktop/Setup/Resources/2022-04-29-setupIQdesktopLocal.sh
inst/setup_IQDesktop/Setup/Resources/IQRpubquiz.md
inst/setup_IQDesktop/Setup/Resources/bash/.bashProjectShortcuts
inst/setup_IQDesktop/Setup/Resources/bash/bash_aliases
inst/setup_IQDesktop/Setup/Resources/excelAddins/openCSV.xlam
inst/setup_IQDesktop/Setup/Resources/thunar_shortcuts/bookmarks
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inst/setup_IQDesktop/ShortcutsAndDockerfiles/copyToCF.sh
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inst/setup_rstudio/keybindings/addins.json
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inst/setup_rstudio/snippets/r.snippets
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inst/templates/Uni_Praesentation_E1_RGB_16_9.potx
inst/templates/Uni_Praesentation_E1_RGB_4_3_V3.potx
inst/templates/Uni_Praesentation_E1e_RGB.pot
inst/templates/Uni_Praesentation_E2_RGB.pot
inst/templates/jeti_template.potx
inst/templates/template1.pptx
inst/templates/uni-praesentation-e1e-rgb-16-9.pot
man/add_stepcolumn.Rd
man/alignAssign.Rd
man/alignAssignArrow.Rd
man/alignAssignEqual.Rd
man/allCommitted.Rd
man/are_names_of.Rd
man/as.condition.grid.Rd
man/as.datalist.NULL.Rd
man/as.datalist.datalist.Rd
man/as.parvec.tbl_df.Rd
man/asSnippet.Rd
man/assignFormals.Rd
man/assign_folders.Rd
man/ast.Rd
man/ast_tree.Rd
man/catDfToExcel.Rd
man/cf_applyPaginate.Rd
man/cf_as.parframe.Rd
man/cf_copy_script.Rd
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man/cf_install_rstudio.Rd
man/cf_normL2.Rd
man/cf_outputFigure.Rd
man/cf_parf_getMeta.Rd
man/cf_parf_getPars.Rd
man/cf_parf_getStepRepresentatives.Rd
man/cf_parf_metaNames.Rd
man/cf_parf_parNames.Rd
man/cf_parf_rbindlist.Rd
man/cf_parframe.Rd
man/cf_plotData.datalist.Rd
man/cf_predict.Rd
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man/cf_profile_getOpenProfiles.Rd
man/cf_profile_getOptimum.Rd
man/cf_profile_getProfilesOptimumBelowFit.Rd
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man/cf_profile_plotPathsAffected.Rd
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man/cf_script_identifyStale.Rd
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man/suggestFunctions.Rd
man/tblprint.Rd
man/test_dMod.frame.Rd
man/theme_cf.Rd
man/theme_msb.Rd
man/todolist.Rd
man/toggle.Rd
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man/trustAna_getArg.Rd
man/trustAna_obj_along_path.Rd
man/trustBlatherResults.Rd
man/uniteFits.Rd
man/unlink_dMod.Rd
man/unnest_listcol_dt.Rd
man/update_cf.Rd
man/update_thunarshortcuts_in_cf.Rd
man/write_clusterTimeStamp.Rd
renumberingSubsections.R
tests/testthat.R
tests/testthat/test-tools.R
tests/testthat/test-wup.R
variableNames.md
wup/markdown.md
