Files in dkaschek/dMod
Dynamic Modeling and Parameter Estimation in ODE Models

.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/classes.R R/dMod.R R/data.R R/dataClass.R R/eqnClass.R R/objClass.R R/odeClass.R R/parClass.R R/parameters.R R/plots.R R/prdClass.R R/prediction.R R/remoteComputing.R R/statistics.R R/symbolics.R R/tools.R R/toolsBeni.R R/toolsDaniel.R R/toolsMalenka.R R/toolsMarcus.R R/toolsMirjam.R R/toolsWolfgang.R R/trustL1.R README.Rmd
README.html
README.md
README_files/figure-html/data-1.png
README_files/figure-html/data-2.png
README_files/figure-html/prediction-1.png
README_files/figure-html/profiles-1.png
README_files/figure-html/trust-1.png
Read-and-delete-me
dMod.Rproj
data/jakstat.tab
inst/code/buildSystem.py
inst/code/checkPredictions.py
inst/code/extendObservation.py
inst/code/functions.py
inst/code/functions_obs.py
inst/code/polyClass.py
inst/code/quasiSteadyStates.py
inst/code/readData.py
inst/code/steadyStates.py
inst/code/symmetryDetection.py
inst/doc/dMod.html
inst/examples/datalist.R inst/examples/eqnlist.R inst/examples/eqnvec.R inst/examples/equations.R inst/examples/errmodel.R inst/examples/events.R inst/examples/normL2.R inst/examples/objective.R inst/examples/odemodel.R inst/examples/parlist.R inst/examples/parvec.R inst/examples/plotting.R inst/examples/prediction.R inst/examples/profiles.R inst/examples/sumdatalist.R inst/examples/test_blocks.R inst/templates/R2CTemplate.R inst/templates/R2CTemplateIE.R inst/templates/unitTestTemplate.R inst/testing/AlgebraicFunctions/example1.R inst/testing/EventsAndReducedSensitivities.R inst/testing/JakStat/jakstat.R inst/testing/JakStat/jakstat2.R inst/testing/JakStat/jakstat3.R
inst/testing/JakStat/pnas_data_original.csv
inst/testing/JakStat/topology.csv
inst/testing/JakStat/topology_inputModel.csv
inst/tests/etc/exampleParser-1-Expectation.R inst/tests/etc/exampleParser-1-Input.R inst/tests/etc/exampleParser-2-Expectation.R inst/tests/etc/exampleParser-2-Input.R inst/tests/test-exmpextr.R inst/tests/test-objective.R inst/tests/test-sumdatalist.R man/P.Rd man/Pexpl.Rd man/Pimpl.Rd man/Xd.Rd man/Xf.Rd man/Xs.Rd man/Xt.Rd man/Y.Rd man/addReaction.Rd man/as.data.frame.dMod.Rd man/as.data.frame.eqnlist.Rd man/as.eqnvec.Rd man/as.objlist.Rd man/as.parframe.Rd man/as.parvec.parframe.Rd man/attrs.Rd man/blockdiagSymb.Rd man/combine.Rd man/compare.Rd man/compile.Rd man/confint.parframe.Rd man/conservedQuantities.Rd man/constraintExp2.Rd man/constraintL2.Rd man/controls.Rd man/coordTransform.Rd man/datalist.Rd man/datapointL2.Rd man/detectFreeCores.Rd man/dot.Rd man/eqnlist.Rd man/eqnvec.Rd man/expand.grid.alt.Rd man/fitErrorModel.Rd man/forcingsSymb.Rd man/format.eqnvec.Rd man/funC0.Rd man/getCoefficients.Rd man/getConditions.Rd man/getDerivs.Rd man/getFluxes.Rd man/getLocalDLLs.Rd man/getParameters.Rd man/getReactions.Rd man/ggopen.Rd man/grapes-.-times-grapes.Rd man/jakstat.Rd man/lbind.Rd man/load.parlist.Rd man/loadDLL.Rd man/long2wide.Rd man/lsdMod.Rd man/mname.Rd man/modelname.Rd man/mssample.Rd man/mstrust.Rd man/nll.Rd man/normL2.Rd man/nullZ.Rd man/objframe.Rd man/objlist.Rd man/obsfn.Rd man/odemodel.Rd man/parfn.Rd man/parframe.Rd man/parlist.Rd man/parvec.Rd man/plot.datalist.Rd man/plot.parlist.Rd man/plotCombined.Rd man/plotData.Rd man/plotFluxes.Rd man/plotPars.Rd man/plotPaths.Rd man/plotPrediction.Rd man/plotProfile.Rd man/plotResiduals.Rd man/plotValues.Rd man/plus-.datalist.Rd man/plus-.fn.Rd man/plus-.objfn.Rd man/plus-.objlist.Rd man/prdfn.Rd man/prdframe.Rd man/prdlist.Rd man/predict.prdfn.Rd man/print.eqnlist.Rd man/print.eqnvec.Rd man/print.parfn.Rd man/print.parvec.Rd man/print0.Rd man/priorL2.Rd man/profile.Rd man/progressBar.Rd man/python.version.request.Rd man/python.version.rpython.Rd man/python.version.sys.Rd man/reduceReplicates.Rd man/repWithNames.Rd man/repar.Rd man/res.Rd man/resolveRecurrence.Rd man/rref.Rd man/runbg.Rd man/runbgInstall.Rd man/runbg_bwfor.Rd man/scale_color_dMod.Rd man/scale_fill_dMod.Rd man/stat.parlist.Rd man/steadyStates.Rd man/strelide.Rd man/strpad.Rd man/submatrix.Rd man/subset.eqnlist.Rd man/summary.eqnvec.Rd man/symmetryDetection.Rd man/theme_dMod.Rd man/times-.fn.Rd man/trust.Rd man/wide2long.Rd man/wide2long.data.frame.Rd man/wide2long.list.Rd man/wide2long.matrix.Rd man/write.eqnlist.Rd man/wrss.Rd
todo.txt
vignettes/BA_transport_model.R vignettes/dMod.Rmd
vignettes/dMod.html
vignettes/pathway.png
vignettes/topology.csv
dkaschek/dMod documentation built on Dec. 9, 2017, 12:26 a.m.