Package: SEtools 1.27.0

Pierre-Luc Germain

SEtools: SEtools: tools for working with SummarizedExperiment

This includes a set of convenience functions for working with the SummarizedExperiment class. Note that plotting functions historically in this package have been moved to the sechm package (see vignette for details).

Authors:Pierre-Luc Germain [cre, aut]

SEtools_1.27.0.tar.gz
SEtools_1.27.0.zip(r-4.7)SEtools_1.27.0.zip(r-4.6)SEtools_1.27.0.zip(r-4.5)
SEtools_1.27.0.tgz(r-4.6-any)SEtools_1.27.0.tgz(r-4.5-any)
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SEtools_1.27.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SEtools/json (API)
NEWS

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

Bug tracker:https://github.com/plger/setools/issues

Datasets:
  • SE - Example dataset

On BioConductor:SEtools-1.27.0(bioc 3.24)SEtools-1.26.0(bioc 3.23)

geneexpression

6.24 score 3 stars 97 scripts 366 downloads 9 exports 111 dependencies

Last updated from:67898208e5. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksERROR208
linux-devel-x86_64NOTE363
source / vignettesOK244
linux-release-x86_64NOTE352
macos-release-arm64NOTE225
macos-oldrel-arm64NOTE176
windows-develNOTE342
windows-releaseNOTE281
windows-oldrelNOTE280
wasm-releaseOK134

Exports:aggSEcastSEflattenPBlog2FCmergeSEsresetAllSEtoolsOptionsse2xlssehmsvacor

Dependencies:abindannotateAnnotationDbiaskpassBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobcacachemcirclizecliclueclustercodetoolscolorspaceComplexHeatmapcpp11crayoncurldata.tableDBIDelayedArrayDESeq2digestdoParalleledgeRfarverfastmapforeachformatRfutile.loggerfutile.optionsgclusgenefiltergenericsGenomicRangesGetoptLongggplot2GlobalOptionsgluegtablehttrIRangesisobanditeratorsjsonliteKEGGRESTlabelinglambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimenlmeopensslopenxlsxpermutepheatmappkgconfigpngqapR6randomcoloRRColorBrewerRcppRcppArmadilloregistryrjsonrlangRSQLiteRtsneS4ArraysS4VectorsS7scalessechmSeqinfoseriationshapesnowSparseArraystatmodstringistringrSummarizedExperimentsurvivalsvasysTSPV8vctrsveganviridisLitewithrXMLxtableXVectorzip

SEtools

Pierre-Luc Germain

Rendered fromSEtools.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2022-11-27
Started: 2019-06-15

Readme and manuals

Help Manual

Help pageTopics
aggSEaggSE
castSEcastSE
Example datasetdata SE
flattenPBflattenPB
log2FClog2FC
mergeSEsmergeSEs
resetAllSEtoolsOptionsresetAllSEtoolsOptions
se2xlsxse2xls
sehmsehm
svacorsvacor