Man pages for scran
Methods for Single-Cell RNA-Seq Data Analysis

buildSNNGraphBuild a nearest-neighbor graph
cleanSizeFactorsSanitize size factors
clusterModularityCompute the cluster-wise modularity
combineMarkersCombine DE results to a marker set
combinePValuesCombine p-values
combineVarCombine variance decompositions
computeSpikeFactorsNormalization with spike-in counts
computeSumFactorsNormalization by deconvolution
convertToConvert to other classes
correlatePairsTest for significant correlations
cosineNormCosine normalize
cycloneCell cycle phase classification
decomposeVarDecompose the gene-level variance
denoisePCADenoise expression with PCA
DMCompute the distance-to-median statistic
doubletCellsDetect doublet cells
doubletClusterDetect doublet clusters
fastMNNFast mutual nearest neighbors correction
findMarkersFind marker genes
gene_selectionGene selection
improvedCV2Stably model the technical coefficient of variation
makeTechTrendMake a technical trend
mnnCorrectMutual nearest neighbors correction
multiBatchNormPer-batch scaling normalization
multiBatchPCAMulti-batch PCA
multiBlockNormPer-block scaling normalization
multiBlockVarPer-block variance statistics
overlapExprsOverlap expression profiles
pairwiseTTestsPerform pairwise t-tests
pairwiseWilcoxPerform pairwise Wilcoxon rank sum tests
parallelPCAParallel analysis for PCA
quickClusterQuick clustering of cells
sandbagCell cycle phase training
scaledColRanksCompute scaled column ranks
simpleSumFactorsQuickly compute size factors via summation
technicalCV2Model the technical coefficient of variation
testVarTest for significantly large variances
trendVarFit a variance trend
scran documentation built on Jan. 5, 2019, 6:55 p.m.