Files in xu-lab/SINCERA
An R implementation of SINCERA pipeline for processing single-cell RNA-seq data.
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/celltype.R
R/drivingforce.R
R/plotting.R
R/preprocessing.R
R/signature.R
R/sincera.R
README.md
data/E16.5.rda
data/IPF.rda
demo/MouseTFs.txt
demo/humanIPF.R
demo/mouselung.e16.5.R
man/GeneStats.Rd
man/batch.analysis.ISCCD.Rd
man/batch.analysis.MA.Rd
man/batch.analysis.QQ.Rd
man/batch.analysis.Rd
man/celltype.enrichment.Rd
man/celltype.enrichment.initKB.Rd
man/celltype.validation.Rd
man/cluster.assignment.Rd
man/cluster.diffgenes.Rd
man/cluster.geneSelection.Rd
man/cluster.ordering.Rd
man/cluster.permutation.analysis.1.Rd
man/cluster.permutation.analysis.Rd
man/clusterings.compare.Rd
man/consensus_maximization.Rd
man/construct.Rd
man/copyCellMeta.Rd
man/copyGeneMeta.Rd
man/doPCA.Rd
man/doTSNE.Rd
man/drivingforce.getLCC.Rd
man/drivingforce.inferTRN.Rd
man/drivingforce.rankTFs.Rd
man/drivingforce.selectTFs.Rd
man/drivingforce.selectTGs.Rd
man/expr.minimum.Rd
man/exprs.common.Rd
man/exprs.specificity.Rd
man/exprs.synthetic.similarity.Rd
man/exprs.test.statistic.metric.Rd
man/exprs.unique.Rd
man/filterContaminatedCells.Rd
man/filterLowQualityCells.Rd
man/getCellMeta.Rd
man/getCellNum.Rd
man/getCellType.Rd
man/getCellTypeMarkers.Rd
man/getCells.Rd
man/getExprQuantiles.Rd
man/getExpression.Rd
man/getGeneMeta.Rd
man/getGeneNum.Rd
man/getGenes.Rd
man/getGenesForClustering.Rd
man/getNodesImportance.Rd
man/getPCA.Rd
man/hello.Rd
man/network.inference.Rd
man/normalization.log.Rd
man/normalization.sqrt.Rd
man/normalization.trimmed.mean.Rd
man/normalization.zscore.1.Rd
man/normalization.zscore.Rd
man/plotCellTypeEnrichment.Rd
man/plotHC.Rd
man/plotHeatmap.Rd
man/plotMarkers.Rd
man/plotPCASD.Rd
man/plotRDS.Rd
man/prefilterGenes.Rd
man/setCellMeta.Rd
man/setCellNames.Rd
man/setCellType.Rd
man/setCellTypeMarkers.Rd
man/setExpression.Rd
man/setGeneMeta.Rd
man/setGeneNames.Rd
man/setGenesForClustering.Rd
man/setPCA.Rd
man/signature.prediction.1.Rd
man/signature.prediction.Rd
man/signature.validation.Rd
man/sigpred.testing.sets.Rd
man/sigpred.training.sets.Rd
man/sincera.Rd
man/specificity.criterion.selection.Rd
man/specificity.thresholdSelection.Rd
