add_stepcolumn | Add step column and fitrank |
alignAssign | Align a highlighted region's assignment operators. |
alignAssignArrow | Align a highlighted region's assignment operators. |
alignAssignEqual | Align a highlighted region's assignment operators. |
allCommitted | Check if everythiing is commmitted |
are_names_of | Pipe-friendly assigning of vectors when their names are known... |
as.condition.grid | Set rownames so that the covtable is in condition.grid format |
as.datalist.datalist | Identity function for datalists |
as.datalist.NULL | As.datalist method for NULL |
as.parvec.tbl_df | #' Try getting conditions #' #' first from obj, then from... |
assign_folders | Create output folders and assign names to variables |
assignFormals | Title |
asSnippet | Title |
ast | From lobstr package, but rlang independent |
ast_tree | Title |
catDfToExcel | Title |
cf_applyPaginate | Get list of paginated plots |
cf_as.parframe | Better as_parframe |
cfcolors | Colors copied and adapted from dMod |
cfcolors2 | Colors copied and adapted from dMod |
cfcolorsFULL | Colors Copied from dMod |
cf_copy_script | Rename a script, change filename occurences within script,... |
cf_copy_scripts_multiple | cf_copy_script for multiple scripts at once |
cfgg_getAllAesthetics | Get comprehensive list of all aesthetics accepted by each... |
cfggplot | cfggplot |
cfgrab | Grab a base plot into grid object |
cf_install_rstudio | Quick setup of RStudio on a new machine |
cfn | *.fn in functional form for safe evaluation and allowing for... |
cf_normL2 | normL2 with NULL allowed for data or x |
cf_outputFigure | Output figures |
cfoutput_MdTable | Output table as markdown |
cf_parf_getMeta | Title |
cf_parf_getPars | Select parameter columns of parframe |
cf_parf_getStepRepresentatives | Title |
cf_parf_metaNames | Title |
cf_parf_parNames | get Parameter names of a parframe |
cf_parframe | Improved version of parframe |
cf_parf_rbindlist | Rbind some parframes |
cf_plotData.datalist | Copied from dMod with additional title showing covariates |
cf_predict | predict.prdfn with options bowser and verbose |
cf_profile | Better wrapper around dMod::profile |
cf_profile_getOpenProfiles | Title |
cf_profile_getOptimum | Title |
cf_profile_getProfilesOptimumBelowFit | getProfiles with optimum below the fit$argument |
cf_profile_getStartPar | Title |
cf_profile_plotPathsAffected | Title |
cf_profile_prepareAffectedPaths | Prepare parameters affected by a profile |
cf_script_extractIdentifier | Extract the numeric identifier of a script |
cf_script_identifyStale | Title |
cf_script_makeFilenames | Generate filenames |
cf_script_remove | Remove scripts AND their output folders |
cf_script_templateVersions | Display template versions |
cf_slides | Title |
cf_slide_section | Title |
cf_slide_titlecontent | Title |
cf_slide_twocontent | Title |
check | Run expression and print OK/FAILED if expression returns... |
check_clusterTimeStamp | Check for the time stamp |
checkSensitivities | Check function to check sensitivities |
compare | Compare function |
compare_objlist | compare two objlists |
construct_parframe | Helper function to reproducibly construct parframes |
cor2cov | Turn correlation matrix and standard deviations back to... |
d2d2dMod_data | Bring wide d2d format of data into long dMod format |
datatimes | create vector of times from min to max |
dMod_files | Consistent dMod filenames |
dMod_readL1 | Title |
dMod_readMstrust | Title |
dMod_readProfiles | Title |
dMod_saveL1 | Title |
dMod_saveMstrust | Title |
dMod_saveProfiles | Consistently save profiles |
do_checkSensitivities | Do Check sensitivities over a list of prds |
doPlots1 | do Plots |
dplyrdt | Title |
dtParseAssignment | Title |
dtParseDtCall | Title |
duplicateArguments | Title |
duplicated_includeFirst | ALL indices of a vector with duplicates |
duplicated_values | Values which are duplicated |
expand.grid2 | Expand.grid which takes in data.frames as well |
exposeAsArgument | Like extract variable, but this writes it into the function... |
extract_derivs | Augmentation of getDerivs to subset wrt to... |
extract_importFrom | Title |
extract_loopargs | Get the arguments of a for loop or of lapply |
fileEditHistory | Edit the current history |
findConnectedCode | Find rows which, taken together, are parseable code |
findFunctionCode | Find rows which, taken together, are a function |
findFunctionStartRow | Title |
fit2obj | Turn a fit into a 2nd order taylor approximation |
fitErrorModel_plot | Get the nice plot of fitErrormodel |
fixCommas | Fix commas in rearranged lists |
flexZirkel | Flexzirkel Stoppuhr |
funnames_in_package | Write a regex to search for all function names in a package |
gall | gitall from R command line |
get_compartments | Read COMPARTMENTS |
get_conditions | Read CONDITIONS |
get_derived | Read DERIVED |
get_description | Read DESCTRIPTION |
get_doseresponse | Read DOSERESPONSE |
get_errors | Read ERRORS |
getFacets | Title |
get_fitted_pars_from_readme | Get fitted pars from Readme.txt |
getFormalValues | Title |
get_inputs | Read INPUTS |
get_observables | Read OBSERVABLES |
getPaginateInfo | get the pagination info from a plot |
get_parcolindices | Get indices of parmaeter columns in a parframe |
get_predictor | Read PREDICTOR |
get_random | Read RANDOM |
get_reactions_or_odes | Read REACTIONS |
getSnippetPath | get file path of snippet file |
get_states | Read STATES |
get_substitutions | Read SUBSTITUTIONS |
gitam | gitcom -amend from R command line |
gitcom | gitcom from R command line |
guess_function | Guess function name of interest |
id_test | Clemens Kreutz Quick identifiability test |
insert_debugonce | Insert debugonce(function) |
insertDput | Title |
insertFormals | Title |
insertHistory | Insert parts of the history |
insert_loopdebugger | Insert the arguments of a loop into the script |
insert_values_by_name | Insert values from another vector with some shared names |
inspire | Get some inspiration |
install_cfBashAliases | Title |
install_cfkeybindings | Install keybindings |
install_cfreservedWords | Copy a standard setup_options_IQRtools.R for custom settings |
install_cfsnippets | Title |
install_thunarshortcuts | Install thunar shortcuts |
install_vscode | Title |
installVSCodeAddinsBindings | get file path of snippet file |
jODE_funJ | Generate Julia source code of prediction function |
jODE_indify_est_grid | Create an index-based version of an est_grid |
jODE_normL2 | normL2 for julia interface |
jODE_prepare_matrices | Turn fixed_grid and est_grid in numerical matrices |
jODE_setup | Setup Julia for the session and load some jODE functions... |
jODE_write_sourcefile | Conveniencefunction to output source file without having to... |
jODE_writeTestScript | Output a little test script to play around with current... |
mat_simplify | Simplify with Mathematica |
meld_dfs | Meld two dfs |
meld_files | Meld two files/dirs |
msNarrow | Construct a parframe with tightly sampled parameters around... |
mypublish_eqnvec2wordtable | Print the odes of an eqnvec in a tex and a docx table |
mypublish_matlist2wordmath | Print a list of matrices as matrices in word math environemt |
mypublish_matlist2wordtable | Print a list of matrices to a single word file with a table... |
mypublish_matrix2wordmath | Print single matrices as matrices in word math environemt |
mypublish_namedvec2wordtable | Print the odes of an eqnvec in a tex and a docx table |
open_in_calc | Write an excel file and cat a name to open it. |
open_in_file | Write a characeter vector to a file and open it. |
openUnitTestFile | Title |
optimal_cuts | Choose the best out of several cut lenghts |
parframes_summary | Quickly print the number of converged fits |
pars2parframe | Turn a pars vector into a single-row parframe |
parseDt | Title |
plotAsDatalist | Quickly plot data |
plotCombined | bla |
plotMulti | PlotMulti |
plotPars | Plot parameter values for a fitlist |
prepare_argpath | Look at the argpath of a fit |
printCFShortcuts | Title |
printJobInfo | Title |
print_mathematica.character | Print a character in mathematica format |
print_mathematica.eqnlist | Print ode vector in mathematica format |
print_mathematica.eqnvec | Print ode vector in mathematica format |
print_mathematica.matrix | Print mathematica |
print_mathematica.name_equals_value | Print the values such that they are assignments in... |
print_r.df2tribble | Print data.frame as tribble-call |
print_r.eqnlist2addReaction_pipe | Print an eqnlist as a pipe of addReaction()-calls and insert... |
print_r.named_vector | nicely formatted dput for named vectors |
proj_create_folders | Create the basic project folder structure |
projSnippetsAndAliases | Title |
protect_so | Zip .so files in a file with unique name |
pullJobs | Git pull all projects in the PROJTOOLS fodler |
read_def_content | Read the *.def file an prepare it for later use |
readDMod.frame | Load a saved dMod.frame |
readSnippets | Title |
reexports | Reexports |
refactor_functionCall | Title |
remove_geom | Remove a geom layer |
report_dMod.frame | Print plots and shit |
scale_centerY | Center y axes of different facets around 0 or 1 |
scale_color_cf | scalecolorcf Copied from dMod |
showUndocumentedParams | For development only |
signif_stars | Significance Stars |
simulate_data | Simluate data with a dMod.frame |
sort_by_name | Sort a vector by names in ascending order |
str0 | str with max.level = 0 |
str_align | Align some lines of code along a pattern |
str_detect_any | Is (any element) of pattern in any of the elements of vec? |
str_escape | Escape all special characters in a string |
str_replace_in_file | Title |
str_subset_keep_names | str_subset that preserves names |
str_subset_name | subset a vector by matching names against a pattern |
str_subset_not | The "opposite" of str_subset. |
subtract_by_name | Subtract elements with matching names |
suggestFunctions | Suggest some functions/Snippets |
tblprint | "tibble-print" a matrix |
test_dMod.frame | Test some basic functionalities of a dMod.frame |
theme_cf | Nice ggplot theme |
theme_msb | Title |
todolist | Todolist |
toggle | Toggle sections |
toggle_attach.input | Toggle attach.input in a dMod.frame |
toggle_blabla | Toggle BLABLA so the documentwalker can extract functions |
toggle_mclapply | Insert the arguments of a loop into the script |
toggle_mclapply_off | Title |
toggle_mclapply_on | Title |
toggle_roxyComments | Switch between # and #' comments |
transformSnippets | Title |
trustAna_getArg | Get the i'th row of an argpath or argtry as a named vector |
trustAna_obj_along_path | evaluate objfun along an argpath of a fit |
trustBlatherResults | Get blather results in nice data.table |
uniteFits | Title |
unlink_dMod | Unlink standard dMod-generated files |
unnest_listcol_dt | Unnest list column |
update_cf | Update package via devtools |
update_thunarshortcuts_in_cf | Title |
write_clusterTimeStamp | Write the time stamp when you logged into the cluster |
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