Files in aertslab/cisTopic
cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
.gitignore
DESCRIPTION
NAMESPACE
R/Annotation.R
R/BasicTopicOperations.R
R/InitializecisTopic.R
R/OverlapcisTopic.R
R/PlotCells.R
R/RcisTarget.R
R/RunModels.R
R/cellData_mel.R
R/cisTopic.R
R/counts_mel.R
R/data_exports.R
README.md
cistopic_singularity.def
data/cellData_mel.RData
data/counts_mel.RData
data/dm3_CtxRegions.RData
data/dm6_CtxRegions.RData
data/hg19_CtxRegions.RData
data/mm9_CtxRegions.RData
inst/examples/cisTopicObject_melanoma.Rds
man/GREAT.Rd
man/addCellMetadata.Rd
man/addRegionMetadata.Rd
man/annotateRegions.Rd
man/binarizecisTopics.Rd
man/binarizedcisTopicsToCtx.Rd
man/cellData_mel.Rd
man/cellTopicHeatmap.Rd
man/cisTopic.Rd
man/counts_mel.Rd
man/createcisTopicObject.Rd
man/createcisTopicObjectFrom10X.Rd
man/createcisTopicObjectFrom10Xmatrix.Rd
man/createcisTopicObjectFromBAM.Rd
man/createcisTopicObjectFromMeth.Rd
man/dm3_CtxRegions.Rd
man/dm6_CtxRegions.Rd
man/getBedFiles.Rd
man/getBigwigFiles.Rd
man/getCistromeEnrichment.Rd
man/getCistromes.Rd
man/getRegionsScores.Rd
man/getSignaturesRegions.Rd
man/hg19_CtxRegions.Rd
man/logLikelihoodByIter.Rd
man/makeBackgroundFeather.Rd
man/mm9_CtxRegions.Rd
man/modelMatSelection.Rd
man/ontologyDotPlot.Rd
man/plotFeatures.Rd
man/predictiveDistribution.Rd
man/renameCells.Rd
man/runCGSModels.Rd
man/runDM.Rd
man/runPCA.Rd
man/runUmap.Rd
man/runWarpLDAModels.Rd
man/runtSNE.Rd
man/scoredRegionsToCtx.Rd
man/selectModel.Rd
man/show.Rd
man/signatureCellEnrichment.Rd
man/signaturesHeatmap.Rd
man/topicSignaturesMatrix.Rd
man/topicsRcisTarget.Rd
vignettes/10X_workflow.Rmd
vignettes/10X_workflow.html
vignettes/CompleteAnalysis.Rmd
vignettes/CompleteAnalysis.html
vignettes/Runningwithmm10andhg38.Rmd
vignettes/Runningwithmm10andhg38.html
vignettes/WarpLDA_10X_workflow.Rmd
vignettes/WarpLDA_10X_workflow.html
vignettes/WarpLDA_CompleteAnalysis.Rmd
vignettes/WarpLDA_CompleteAnalysis.html
