Files in jhsiao999/ashbun
Methods and evaluation tools for single cell RNA-seq count data
.Rbuildignore
.gitignore
.gitignore~
.travis.yml
DESCRIPTION
NAMESPACE
R/ashPoissonDiagnostics.R
R/ashPoissonModality.R
R/evaluateMethods.R
R/fit-various-dist-for-zeros.r
R/methodsBenchmarks.R
R/methodsConfoundingCorrection.R
R/methodsMeanExpression-bulk.R
R/methodsMeanExpression-singleCell.R
R/methodsNormalize.Diagnostics.R
R/methodsNormalize.R
R/methodsPreprocess.R
R/simulateExpression.R
R/varianceComp-blmer.r
README.Rmd
README.md
ashbun.Rproj
inst/dsc/bun.dsc
inst/dsc/get_counts.R
inst/dsc/mean.R
inst/dsc/normalize.R
inst/dsc/simulate.R
inst/testdata/HumanTungiPSC.rda
inst/testdata/testdata.R
man/Implement.Rd
man/args.big_normal.Rd
man/args.bimodal.Rd
man/args.flat_top.Rd
man/args.near_normal.Rd
man/args.spiky.Rd
man/args.uni_natural.Rd
man/args.uni_natural_pm_zero.Rd
man/args.uni_natural_uni_zero.Rd
man/args.uni_zero.Rd
man/ashPoissonWrapper.Rd
man/dens_unimix.Rd
man/dens_unimix_sing.Rd
man/filter.Wrapper.Rd
man/filter.excludeAllZeros.Rd
man/filterFeatures.fractionExpressed.Rd
man/filterSamples.fractionExpressed.Rd
man/gene_variation.Rd
man/getAUC.Rd
man/getROC.Rd
man/getROC.average.Rd
man/getTPR.Rd
man/getTPR.pROC.Rd
man/makeSimCount2groups.Rd
man/makeSimCount2groups.filter.Rd
man/make_normalmix.Rd
man/methodWrapper.DESeq2.Rd
man/methodWrapper.bpsc.Rd
man/methodWrapper.edgeR.Rd
man/methodWrapper.limmaVoom.Rd
man/methodWrapper.num_sv.Rd
man/methodWrapper.scde.Rd
man/methodWrapper.sva.Rd
man/negbin.Rd
man/negbin_hurdle.Rd
man/negbin_zif.Rd
man/non_null_sim.Rd
man/normalize.census.Rd
man/normalize.cpm.Rd
man/normalize.lib.Rd
man/normalize.rle.Rd
man/normalize.scnorm.Rd
man/normalize.scran.Rd
man/normalize.tmm.Rd
man/pois_thinning.Rd
man/query.evaluation.Rd
man/query.methodsMeanExpression.Rd
man/query.methodsNormalization.Rd
man/query.pipeline.Rd
man/sampleingene.Rd
man/simulationWrapper.Rd
man/simulationWrapper.filter.Rd
man/voom.controlPseudocount.Rd
tests/test-package.Rmd
tests/test-package.html
tests/tests.results.multiple.data.rds
tests/tests.results.one.data.rds
tests/testthat.R
tests/testthat/common-methodsMeanExpression.R
tests/testthat/common-methodsNormalize.R
tests/testthat/test-methodsMeanExpression.R
tests/testthat/test-methodsNormalize.R
