Files in benstory/mitoClone2
Clonal Population Identification in Single-Cell RNA-Seq Data using Mitochondrial and Somatic Mutations
DESCRIPTION
NAMESPACE
NEWS
R/bam_functions.R
R/classes.R
R/clustering.R
R/data.R
R/functions_tree.R
R/mutationCalling.R
R/sysdata.rda
README.md
data/M_P1.RData
data/M_P2.RData
data/N_P1.RData
data/N_P2.RData
inst/SCITEpkg/README.md
inst/SCITEpkg/findBestTrees.cpp
inst/SCITEpkg/matrices.cpp
inst/SCITEpkg/matrices.h
inst/SCITEpkg/mcmc.cpp
inst/SCITEpkg/mcmc.h
inst/SCITEpkg/mcmcBinTreeMove.cpp
inst/SCITEpkg/mcmcBinTreeMove.h
inst/SCITEpkg/mcmcTreeMove.cpp
inst/SCITEpkg/mcmcTreeMove.h
inst/SCITEpkg/output.cpp
inst/SCITEpkg/output.h
inst/SCITEpkg/rand.cpp
inst/SCITEpkg/rand.h
inst/SCITEpkg/scoreBinTree.cpp
inst/SCITEpkg/scoreBinTree.h
inst/SCITEpkg/scoreTree.cpp
inst/SCITEpkg/scoreTree.h
inst/SCITEpkg/treelist.cpp
inst/SCITEpkg/treelist.h
inst/SCITEpkg/trees.cpp
inst/SCITEpkg/trees.h
inst/extdata/LudwigFig7.Rda
inst/extdata/example_counts.Rda
inst/extdata/mm10_10x.bam
inst/extdata/mm10_10x.bam.bai
inst/extdata/sample_example1.RDS
inst/script/README
man/bam2R_10x.Rd
man/baseCountsFromBamList.Rd
man/clusterMetaclones.Rd
man/data.Rd
man/figures/logo.png
man/getAlleleCount.Rd
man/getCloneLikelihood.Rd
man/getVarsCandidate.Rd
man/mitoPlot.Rd
man/mut2GR.Rd
man/mutationCalls-class.Rd
man/mutationCallsFromCohort.Rd
man/mutationCallsFromExclusionlist.Rd
man/mutationCallsFromMatrix.Rd
man/overwriteMetaclones.Rd
man/plotClones.Rd
man/pullcountsVars.Rd
man/quick_cluster.Rd
man/removeWindow.Rd
man/setVarsCandidate.Rd
man/varCluster.Rd
src/Makevars
src/bam2R_10x.cpp
tests/testthat.R
tests/testthat/test-bam.R
vignettes/clustering.Rmd
vignettes/overview.Rmd
