Files in OncoSimulR

Forward Genetic Simulation of Cancer Progression with Epistasis

src/install.libs.R R/new-restrict.R R/OncoSimulR.R R/mutator.R R/rfitness.R R/fitness_landscape_utils.R R/RcppExports.R R/LOD_POM.R R/conversion-helpers.R R/from_genotype_utils.R R/generate-random-trees.R R/stacked-plots.R R/nem_transitive_reduction.R vignettes/OncoSimulR.Rmd man/evalAllGenotypes.Rd man/plotClonePhylog.Rd man/to_Magellan.Rd man/plotFitnessLandscape.Rd man/plot.fitnessEffects.Rd man/benchmarks.Rd man/POM.Rd man/samplePop.Rd man/rfitness.Rd man/simOGraph.Rd man/examplePosets.Rd man/poset.Rd man/plotPoset.Rd man/mcfLs.Rd man/allFitnessEffects.Rd man/plot.oncosimul.Rd man/OncoSimulWide2Long.Rd man/examplesFitnessEffects.Rd man/oncoSimulIndiv.Rd man/example-missing-drivers.Rd tests/testthat.R tests/manual/test.oncoSimulSample-limits-long.R tests/manual/test.mutator-long.R tests/manual/test.simuls-run-examples-long.R tests/manual/test.Z-warning-mutPropGrowth-long.R tests/manual/test.exercise-plotting-code-long.R tests/manual/test.driverCounts-long.R tests/manual/test.fixation-long.R tests/manual/test.Z-driverCounts-long.R tests/manual/test.mutator-oncoSimulSample-long.R tests/manual/test.warning-mutPropGrowth-long.R tests/manual/test.poset-transformations-long.R tests/manual/test.mutPropGrowth-long.R tests/manual/test.sample-prob-long.R tests/manual/test.per-gene-mutation-rates-long.R tests/manual/test.fitness-preds-long.R tests/manual/test.Z-sample-only-last-long.R tests/testthat/test.Z-fixation.R tests/testthat/test.driverCounts.R tests/testthat/test.Z-driverCounts.R tests/testthat/test.LOD_POM.R tests/testthat/test.oncoSimulSample-limits.R tests/testthat/test.samplePop.R tests/testthat/test.simuls-run-examples.R tests/testthat/test.exercise-rfitness.R tests/testthat/test.init-mutant.R tests/testthat/test.Z-oncoSimulIndiv.R tests/testthat/test.genot_fitness_to_epistasis.R tests/testthat/test.modules-root-no-root.R tests/testthat/test.magellan.R tests/testthat/test.exercise-to-Magellan.R tests/testthat/test.oncoSimulSample-failures.R tests/testthat/test.genotFitness.R tests/testthat/test.fixation.R tests/testthat/test.wide2long.R tests/testthat/test.per-gene-mutation-rates.R tests/testthat/test.oncoSimulIndiv-miscell.R tests/testthat/test.plotFitnessLandscape.R tests/testthat/test.Z-rfitness-landscape.R tests/testthat/test.Z-total-present-drivers.R tests/testthat/test.poset-transformations.R tests/testthat/test.sample-prob.R tests/testthat/test.fitness-preds.R tests/testthat/test.Z-mutator.R tests/testthat/test.flfast-mutator.R tests/testthat/test.warning-mutPropGrowth.R tests/testthat/test.exercise-plotting-code.R tests/testthat/test.mutator-oncoSimulSample.R tests/testthat/test.flfast-additional.R tests/testthat/test.all-fitness.R tests/testthat/test.Z-magellan.R tests/testthat/test.accessible_genotypes.R tests/testthat/test.epist-order-modules.R tests/testthat/test.mutator.R tests/testthat/test.Z-sample-only-last.R tests/testthat/test.mutPropGrowth.R tests/testthat/test.Z-all-fitness.R inst/doc/OncoSimulR.R inst/doc/OncoSimulR.Rmd inst/miscell/benchmark_3.R inst/miscell/benchmark_1.R inst/miscell/large_pop_size.R inst/miscell/benchmark_2.R inst/miscell/benchmark_1_0.05.R inst/miscell/large_num_genes.R inst/miscell/large_num_genes_0.05.R