Man pages for compbiomed/singleCellTK
Interactive Analysis of Single Cell RNA-Seq Data

alignSingleCellDataAlign Single Cell RNA-Seq Data and Create a SCtkExperiment...
calcEffectSizesFinds the effect sizes for all genes in the original dataset,...
ComBatSCEComBatSCE
convertGeneIDsConvert Gene IDs
createSCECreate a SCtkExperiment object
distinctColorsGenerate a distinct palette for coloring different clusters
DownsampleCellsEstimate numbers of detected genes, significantly...
DownsampleDepthEstimate numbers of detected genes, significantly...
enrichRSCEenrichR Given a list of genes this function runs the...
filterSCDataFilter Genes and Samples from a Single Cell Object
generateSimulatedDataGenerates a single simulated dataset, bootstrapping from the...
getClusterInputDataGet data to use as input clustering algorithms
getPCAGet and plot PCA and t-SCE components for a SCtkE object
gsvaSCEgsvaSCE
iterateSimulationsReturns significance data from a snapshot.
MASTMAST
mouseBrainSubsetSCEExample Single Cell RNA-Seq data in SCtkExperiment Object,...
parseRsubreadLogsParse Rsubread Logs for Mapping and Feature Count Statistics
pcaVariancesGet PCA variances
pcaVariances-setSet PCA variances
plotBatchVariancePlot the percent of the variation that is explained by batch...
plotDiffExPlot Differential Expression
scDiffExPerform differential expression analysis on a SCtkExperiment...
SCtkExperimentCreate a SCtkExperiment
SCtkExperiment-classA lightweight S4 extension to the SingleCellExperiment class...
singleCellTKRun the single cell analysis app
subDiffExPasses the output of generateSimulatedData() to differential...
summarizeTableSummarize SCtkExperiment
visPlotvisPlot
compbiomed/singleCellTK documentation built on Aug. 31, 2018, 7:17 p.m.