Package: scmeth 1.32.0

Divy Kangeyan

scmeth: Functions to conduct quality control analysis in methylation data

Functions to analyze methylation data can be found here. Some functions are relevant for single cell methylation data but most other functions can be used for any methylation data. Highlight of this workflow is the comprehensive quality control report.

Authors:Divy Kangeyan <[email protected]>

scmeth_1.32.0.tar.gz
scmeth_1.32.0.zip(r-4.7)scmeth_1.32.0.zip(r-4.6)scmeth_1.32.0.zip(r-4.5)
scmeth_1.32.0.tgz(r-4.6-any)scmeth_1.32.0.tgz(r-4.5-any)
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scmeth_1.32.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
scmeth/json (API)
NEWS

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

Bug tracker:https://github.com/aryeelab/scmeth/issues

On BioConductor:scmeth-1.33.0(bioc 3.24)scmeth-1.32.0(bioc 3.23)

dnamethylationqualitycontrolpreprocessingsinglecellimmunooncologybioconductor-packagemethylationsingle-cell-methylation

4.99 score 13 scripts 332 downloads 1 mentions 12 exports 152 dependencies

Last updated from:1848ceab9d (on RELEASE_3_23). Checks:2 ERROR, 6 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksERROR376
linux-devel-x86_64NOTE667
source / vignettesOK500
linux-release-x86_64ERROR605
macos-release-arm64NOTE586
macos-oldrel-arm64NOTE368
windows-develNOTE528
windows-releaseNOTE573
windows-oldrelNOTE489
wasm-releaseOK311

Exports:bsConversionPlotchromosomeCoveragecoveragecpgDensitycpgDiscretizationdownsamplefeatureCoveragembiasplotmethylationDistreadmetricsrepMaskreport

Dependencies:abindAnnotationDbiAnnotationHubannotatraskpassassortheadbase64encbeachmatBHBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocIObiocmakeBiocManagerBiocParallelBiocVersionBiostringsbitbit64bitopsblobBSgenomebslibbsseqcachemcigarilloclicliprcodetoolscpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArrayDelayedMatrixStatsdigestdir.expirydplyrDTevaluatefarverfastmapfilelockfontawesomeformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegtablegtoolsh5mreadHDF5Arrayhighrhmshtmltoolshtmlwidgetshttrhttr2IRangesisobandjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclelimmalocfitmagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslotelpermutepillarpkgconfigplyrpngprettyunitsprogresspromisespurrrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRCurlreadrregioneRreshape2restfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrmarkdownRsamtoolsRSQLitertracklayerS4ArraysS4VectorsS7sassscalesSeqinfosnowSparseArraysparseMatrixStatsstatmodstringistringrSummarizedExperimentsystibbletidyrtidyselecttinytextzdbUCSC.utilsutf8vctrsviridisLitevroomwithrxfunXMLXVectoryaml

scmeth Vignette

Divy S. Kangeyan

Rendered frommy-vignette.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2019-01-09
Started: 2017-03-28