Package: DegNorm 1.21.0

Ji-Ping Wang

DegNorm: DegNorm: degradation normalization for RNA-seq data

This package performs degradation normalization in bulk RNA-seq data to improve differential expression analysis accuracy. It provides estimates for each gene within each sample.

Authors:Ji-Ping Wang [aut, cre]

DegNorm_1.21.0.tar.gz
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DegNorm.pdf |DegNorm.html✨
DegNorm/json (API)
NEWS

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

Bug tracker:https://github.com/jipingw/degnorm/issues

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3
  • openmp– GCC OpenMP (GOMP) support library
Datasets:

On BioConductor:DegNorm-1.21.0(bioc 3.23)DegNorm-1.20.0(bioc 3.22)

rnaseqnormalizationgeneexpressionalignmentcoveragedifferentialexpressionbatcheffectsoftwaresequencingimmunooncologyqualitycontroldataimportopenblascppopenmp

5.38 score 2 stars 3 scripts 330 downloads 4 mentions 8 exports 151 dependencies

Last updated from:caacface53. Checks:12 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE224
linux-devel-arm64NOTE454
linux-devel-x86_64NOTE487
source / vignettesOK574
linux-release-arm64NOTE461
linux-release-x86_64NOTE526
macos-release-arm64NOTE437
macos-release-x86_64NOTE618
macos-oldrel-arm64NOTE325
macos-oldrel-x86_64NOTE644
windows-develNOTE477
windows-releaseNOTE432
windows-oldrelNOTE441
wasm-releaseOK196

Exports:degnormplot_boxplotplot_corrplot_coverageplot_heatmapread_coverage_batchsummary_CoverageClasssummary_DegNormClass

Dependencies:abindAnnotationDbiaskpassassertthatbase64encBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbitbit64bitopsblobbslibcacachemcallrcigarillocliclustercodetoolscolorspacecpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArraydendextenddigestdoParalleldplyreggevaluatefarverfastmapfilelockfontawesomeforeachformatRfsfutile.loggerfutile.optionsgclusgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegridExtragtableheatmaplyhighrhmshtmltoolshtmlwidgetshttrhttr2IRangesisobanditeratorsjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimenlmeopensslotelpermutepillarpkgconfigplotlyplyrpngprettyunitsprocessxprogresspromisespspurrrqapR6rappdirsRColorBrewerRcppRcppArmadilloRCurlregistryreshape2restfulrRhtslibrjsonrlangrmarkdownRsamtoolsRSQLitertracklayerS4ArraysS4VectorsS7sassscalesSeqinfoseriationsnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttinytexTSPtxdbmakerUCSC.utilsutf8vctrsveganviridisviridisLitewebshotwithrxfunXMLxml2XVectoryaml

DegNorm: an R package for degradation normalization for RNA-seq data

Bin Xiong, Ji-Ping Wang

Rendered fromDegNorm.Rmdusingknitr::rmarkdownon Apr 09 2026.

Last update: 2022-06-03
Started: 2020-04-27