Files in rliger
Linked Inference of Genomic Experimental Relationships
MD5
NEWS.md
README.md
NAMESPACE
DESCRIPTION
R/RcppExports.R
R/utilities.R
R/data.R
R/deprecated.R
R/rliger.R
src/matrix.h
src/Makevars.win
src/Makevars
src/ModularityOptimizer.h
src/ls.h
src/RcppExports.cpp
src/factorization.h
src/mask.h
src/snn.cpp
src/data_processing.cpp
src/quantile_norm.cpp
src/run_nmf.cpp
src/ModularityOptimizer.cpp
src/vector.h
src/fast_wilcox.cpp
src/feature_mat.cpp
src/RModularityOptimizer.cpp
src/parameters.h
src/nnls.h
src/entities.h
inst/include/rliger.h
inst/doc/liger-vignette.R
inst/doc/liger-vignette.Rmd
inst/doc/liger-vignette.html
build/vignette.rds
tests/testthat.R
tests/testdata/small_pbmc_data.RDS
tests/testthat/test_post_factorization.R
tests/testthat/test_preprocessing.R
vignettes/liger-vignette.Rmd
data/stim.rda
data/ctrl.rda
man/makeInteractTrack.Rd
man/seuratToLiger.Rd
man/mergeH5.Rd
man/normalize.Rd
man/convertOldLiger.Rd
man/louvainCluster.Rd
man/runUMAP.Rd
man/makeRiverplot.Rd
man/ligerToSeurat.Rd
man/runGSEA.Rd
man/getProportionMito.Rd
man/removeMissingObs.Rd
man/calcAlignmentPerCluster.Rd
man/optimizeALS.Rd
man/quantile_norm.Rd
man/liger-class.Rd
man/plotGeneLoadings.Rd
man/calcPurity.Rd
man/quantileAlignSNF.Rd
man/optimizeNewData.Rd
man/readSubset.Rd
man/plotFactors.Rd
man/getFactorMarkers.Rd
man/plotGene.Rd
man/plotClusterProportions.Rd
man/plotByDatasetAndCluster.Rd
man/scaleNotCenter.Rd
man/optimizeNewK.Rd
man/calcAlignment.Rd
man/optimizeNewLambda.Rd
man/plotGeneViolin.Rd
man/liger-demodata.Rd
man/plotClusterFactors.Rd
man/imputeKNN.Rd
man/calcAgreement.Rd
man/read10X.Rd
man/selectGenes.Rd
man/getGeneValues.Rd
man/optimizeSubset.Rd
man/reorganizeLiger.Rd
man/calcDatasetSpecificity.Rd
man/linkGenesAndPeaks.Rd
man/makeFeatureMatrix.Rd
man/calcARI.Rd
man/subsetLiger.Rd
man/runTSNE.Rd
man/calcNormLoadings.Rd
man/calcGeneVars.Rd
man/suggestK.Rd
man/online_iNMF.Rd
man/restoreOnlineLiger.Rd
man/suggestLambda.Rd
man/plotFeature.Rd
man/plotWordClouds.Rd
man/show-methods.Rd
man/createLiger.Rd
man/runWilcoxon.Rd
man/plotGenes.Rd
