Package: DegNorm 1.23.0

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_1.23.0.tar.gz
DegNorm_1.23.0.zip(r-4.7)DegNorm_1.23.0.zip(r-4.6)DegNorm_1.21.0.zip(r-4.5)
DegNorm_1.23.0.tgz(r-4.6-x86_64)DegNorm_1.23.0.tgz(r-4.6-arm64)DegNorm_1.21.0.tgz(r-4.5-x86_64)DegNorm_1.21.0.tgz(r-4.5-arm64)
DegNorm_1.23.0.tar.gz(r-4.7-arm64)DegNorm_1.23.0.tar.gz(r-4.7-x86_64)DegNorm_1.23.0.tar.gz(r-4.6-arm64)DegNorm_1.23.0.tar.gz(r-4.6-x86_64)
DegNorm_1.23.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
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-1.23.0(bioc 3.24)DegNorm-1.22.0(bioc 3.23)

rnaseqnormalizationgeneexpressionalignmentcoveragedifferentialexpressionbatcheffectsoftwaresequencingimmunooncologyqualitycontroldataimportopenblascppopenmp

5.38 score 2 stars 3 scripts 368 downloads 4 mentions 8 exports 152 dependencies

Last updated from:facd45b710. Checks:9 NOTE, 2 OK, 3 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE233
linux-devel-arm64NOTE445
linux-devel-x86_64NOTE564
source / vignettesOK553
linux-release-arm64NOTE452
linux-release-x86_64NOTE498
macos-release-arm64NOTE311
macos-release-x86_64NOTE639
macos-oldrel-arm64FAIL84
macos-oldrel-x86_64FAIL282
windows-develNOTE433
windows-releaseNOTE554
windows-oldrelFAIL81
wasm-releaseOK191

Exports:degnormplot_boxplotplot_corrplot_coverageplot_heatmapread_coverage_batchsummary_CoverageClasssummary_DegNormClass

Dependencies:abindAnnotationDbiaskpassassertthatbase64encBHBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbitbit64bitopsblobbslibcacachemcallrcigarillocliclustercodetoolscolorspacecpp11crayoncrosstalkcurldata.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 May 28 2026.

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