API for minzheguo/SINCERA
An R implementation of SINCERA pipeline for processing single-cell RNA-seq data.

Global functions
GeneStats Man page Source code
batch.analysis Man page
batch.analysis.ISCCD Man page Source code
batch.analysis.MA Man page Source code
batch.analysis.QQ Man page Source code
celltype.enrichment Man page
celltype.enrichment.initKB Man page Source code
celltype.validation Man page
cluster.assignment Man page
cluster.diffgenes Man page
cluster.geneSelection Man page
cluster.ordering Man page Source code
cluster.permutation.analysis Man page
cluster.permutation.analysis.1 Man page Source code
clustering.consensus Source code
clustering.graph Source code
clustering.hc Source code
clustering.kmeans Source code
clustering.pam Source code
clustering.tight Source code
clusterings.compare Man page Source code
common.helper Source code
consensus_maximization Man page Source code
construct Man page Source code
copyCellMeta Man page Source code
copyGeneMeta Man page Source code
diff.test.samseq Source code
doPCA Man page
doTSNE Man page
drivingforce.getLCC Man page
drivingforce.inferTRN Man page
drivingforce.rankTFs Man page
drivingforce.selectTFs Man page
drivingforce.selectTGs Man page
expr.minimum Man page
exprs.common Man page Source code
exprs.specificity Man page Source code
exprs.synthetic.similarity Man page Source code
exprs.test.statistic.metric Man page Source code
exprs.unique Man page Source code
filterContaminatedCells Man page
filterLowQualityCells Man page
getAssociationTable Source code
getCellMeta Man page Source code
getCellNum Man page Source code
getCellType Man page Source code
getCellTypeEnrichment Source code
getCellTypeMarkers Man page Source code
getCellTypeValidation Source code
getCells Man page Source code
getDF Source code
getDiffGenes Source code
getDiffTest Source code
getES Source code
getExprQuantiles Man page Source code
getExpression Man page Source code
getGeneMeta Man page Source code
getGeneNum Man page Source code
getGenes Man page Source code
getGenesForClustering Man page Source code
getHC Source code
getNodesImportance Man page Source code
getPCA Man page Source code
getPlotDims Source code
getSigGenes Source code
getSigValidation Source code
getTFs Source code
getTSNE Source code
getTimestamp Source code
get_edges Source code
hello Man page
multiplot Source code
network.inference Man page Source code
normalization.log Man page Source code
normalization.sqrt Man page Source code
normalization.trimmed.mean Man page Source code
normalization.zscore Man page
normalization.zscore.1 Man page Source code
pa.distance.helper Source code
pa.helper Source code
pause Source code
plotCellTypeEnrichment Man page
plotHC Man page
plotHeatmap Man page
plotMarkers Man page
plotPCASD Man page
plotRDS Man page
prefilterGenes Man page
setAssociationTable Source code
setCellMeta Man page Source code
setCellNames Man page Source code
setCellType Man page Source code
setCellTypeEnrichment Source code
setCellTypeMarkers Man page Source code
setCellTypeValidation Source code
setDF Source code
setDiffGenes Source code
setDiffTest Source code
setES Source code
setExpression Man page Source code
setGeneMeta Man page Source code
setGeneNames Man page Source code
setGenesForClustering Man page Source code
setHC Source code
setPCA Man page Source code
setSigGenes Source code
setSigValidation Source code
setTFs Source code
setTSNE Source code
signature.prediction Man page
signature.prediction.1 Man page Source code
signature.validation Man page
sigpred.testing.sets Man page Source code
sigpred.training.sets Man page Source code
sincera Man page
sincera-class Man page
sincera_theme Source code
specificity.criterion.selection Man page Source code
specificity.helper Source code
specificity.thresholdSelection Man page Source code
triangle Source code
trimmed.mean.helper Source code
unique.helper Source code
z.transform.helper Source code
minzheguo/SINCERA documentation built on July 27, 2017, 2:09 a.m.