Package: escape 2.9.0

Nick Borcherding

escape: Easy single cell analysis platform for enrichment

A bridging R package to facilitate gene set enrichment analysis (GSEA) in the context of single-cell RNA sequencing. Using raw count information, Seurat objects, or SingleCellExperiment format, users can perform and visualize ssGSEA, GSVA, AUCell, and UCell-based enrichment calculations across individual cells. Alternatively, escape supports use of rank-based GSEA, such as the use of differential gene expression via fgsea.

Authors:Nick Borcherding [aut, cre], Jared Andrews [aut], Tobias Hoch [ctb], Alexei Martsinkovskiy [ctb]

escape_2.9.0.tar.gz
escape_2.9.0.zip(r-4.7)escape_2.9.0.zip(r-4.6)escape_2.9.0.zip(r-4.5)
escape_2.9.0.tgz(r-4.6-any)escape_2.9.0.tgz(r-4.5-any)
escape_2.9.0.tar.gz(r-4.7-any)escape_2.9.0.tar.gz(r-4.6-any)
escape_2.9.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
escape/json (API)
NEWS

# Install 'escape' in R:
install.packages('escape', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/borchlab/escape/issues

Datasets:

On BioConductor:escape-2.9.0(bioc 3.24)escape-2.8.0(bioc 3.23)

softwaresinglecellclassificationannotationgenesetenrichmentsequencinggenesignalingpathways

9.65 score 225 stars 1 packages 208 scripts 926 downloads 15 exports 44 dependencies

Last updated from:15bf933fef. Checks:1 WARNING, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING271
linux-devel-x86_64OK450
source / vignettesOK380
linux-release-x86_64OK472
macos-release-arm64OK244
macos-oldrel-arm64OK266
windows-develOK651
windows-releaseOK356
windows-oldrelOK633
wasm-releaseOK203

Exports:densityEnrichmentenrichItenrichItPlotescape.matrixgetGeneSetsgeyserEnrichmentgseaEnrichmentheatmapEnrichmentpcaEnrichmentperformNormalizationperformPCAridgeEnrichmentrunEscapescatterEnrichmentsplitEnrichment

Dependencies:abindBiobaseBiocGenericsclicpp11DelayedArraydistributionalfarvergenericsGenomicRangesggdistggplot2gluegtableIRangesisobandlabelinglatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsnumDerivpillarpkgconfigquadprogR6RColorBrewerRcpprlangS4ArraysS4VectorsS7scalesSeqinfoSparseArraySummarizedExperimenttibbleutf8vctrsviridisLitewithrXVector

Gene-set enrichment on single-cell data with escape

Nick Borcherding, Jared Andrews

Rendered fromescape.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2026-01-04
Started: 2025-03-18