Files in oliviaAB/sismonr
Simulation of in Silico Multi-Omic Networks
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS.md
R/args_classes.R
R/imports.R
R/in_silico_population.R
R/in_silico_system.R
R/julia_evaluators.R
R/stochastic_simulation.R
R/zzz.R
README.md
docs/_config.yml
docs/_includes/lib/mathjax.html
docs/_includes/lib/nav.html
docs/_includes/lib/toc.html
docs/example/documentation_code.R
docs/example/mypop.RData
docs/example/mysystem.RData
docs/example/plant_colour_pathway.R
docs/example/sim.RData
docs/example/simulation_reactions.txt
docs/example/simulation_species.txt
docs/images/GRN.png
docs/images/GRN_TC.png
docs/images/GRNcolpw.png
docs/images/heatmap_colpw_tmax100.png
docs/images/plotHeatMap.png
docs/images/plotMutations.png
docs/images/plotMutations2.png
docs/images/plotSimulation.png
docs/images/plotSimulation2.png
docs/images/plotSimulationPTM.png
docs/index.md
inst/julia/installModules.jl
inst/julia/network.jl
inst/julia/stochastic_model.jl
inst/julia/stochastic_simulation.jl
inst/julia/testModules.jl
man/addComplex.Rd
man/addEdge.Rd
man/addGene.Rd
man/callJuliaStochasticSimulation.Rd
man/checkJuliaModules.Rd
man/checkJuliaVersion.Rd
man/check_julia.Rd
man/createEmptyMultiOmicNetwork.Rd
man/createGenes.Rd
man/createInSilicoPopulation.Rd
man/createInSilicoSystem.Rd
man/createIndividual.Rd
man/createMultiOmicNetwork.Rd
man/createRegulatoryNetwork.Rd
man/createStochSystem.Rd
man/createVariants.Rd
man/df2list.Rd
man/figures/make_hex_sticker.R
man/figures/sismonr.png
man/findJuliaNoError.Rd
man/getComplexes.Rd
man/getEdges.Rd
man/getGRN.Rd
man/getGenes.Rd
man/getJuliaEvaluator.Rd
man/getRNAseqMatrix.Rd
man/getReactions.Rd
man/insilicoindividualargs.Rd
man/insilicosystemargs.Rd
man/installJuliaModules.Rd
man/mergeAlleleAbundance.Rd
man/mergeComplexesAbundance.Rd
man/mergePTMAbundance.Rd
man/newJuliaEvaluator.Rd
man/plotGRN.Rd
man/plotGRNstatic.Rd
man/plotHeatMap.Rd
man/plotMutations.Rd
man/plotSimulation.Rd
man/removeComplex.Rd
man/removeEdge.Rd
man/removeJuliaEvaluator.Rd
man/sampleLibrarySize.Rd
man/simulateInSilicoSystem.Rd
man/simulateParallelInSilicoSystem.Rd
man/sortComponents.Rd
man/steadyStateAbundance.Rd
man/summariseSimulation.Rd
paper_code/sismonr_paper_anthocyanin_pw_simulation.R
sismonr.Rproj
tests/testthat.R
tests/testthat/test-args_classes.R
tests/testthat/test-in_silico_population.R
tests/testthat/test-in_silico_system.R
tests/testthat/test-julia_evaluators.R
tests/testthat/test-stochastic_simulation.R
vignettes/.gitignore
vignettes/sismonr_vignette.Rmd
