Package: APAlyzer 1.26.0

Ruijia Wang

APAlyzer: A toolkit for APA analysis using RNA-seq data

Perform 3'UTR APA, Intronic APA and gene expression analysis using RNA-seq data.

Authors:Ruijia Wang [cre, aut], Bin Tian [aut], Wei-Chun Chen [aut]

APAlyzer_1.26.0.tar.gz
APAlyzer_1.26.0.zip(r-4.7-any)APAlyzer_1.26.0.zip(r-4.6-any)APAlyzer_1.26.0.zip(r-4.5-any)
APAlyzer_1.26.0.tgz(r-4.6-any)APAlyzer_1.26.0.tgz(r-4.5-any)
APAlyzer_1.26.0.tar.gz(r-4.7-any)APAlyzer_1.26.0.tar.gz(r-4.6-any)
APAlyzer_1.26.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
APAlyzer/json (API)

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

Bug tracker:https://github.com/rjwangbioinfo/apalyzer/issues

On CRAN:

Conda:

sequencingrnaseqdifferentialexpressiongeneexpressiongeneregulationannotationdataimportsoftwareative-polyadenylationbioinformatics-toolrna-seq

4.34 score 14 stars 13 scripts 436 downloads 4 mentions 12 exports 114 dependencies

Last updated from:18ab0742cc (on RELEASE_3_23). Checks:1 WARNING, 8 ERROR, 1 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING231
linux-develERROR485
source / vignettesERROR291
linux-releaseERROR475
macos-releaseERROR520
macos-oldrelERROR292
windows-develERROR599
windows-releaseERROR334
windows-oldrelERROR585
wasm-releaseOK186

Exports:APABoxAPAdiffAPAVolcanodownload_testbamGENEXP_CDSPAS2GEFPASEXP_3UTRPASEXP_IPAREF3UTRREF4PASREFCDSThreeMostPairBam

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbitbit64bitopsblobBSgenomecachemcigarilloclicodetoolscpp11crayoncurldata.tableDBIdbplyrDelayedArrayDESeq2digestdplyrfarverfastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2ggrepelgluegtablehmshttrhttr2IRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelifecyclelocfitmagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigplyrpngprettyunitsprogresspurrrR.cacheR.methodsS3R.ooR.utilsR6RColorBrewerRcppRcppArmadilloRCurlrepmisrestfulrRhtslibrjsonrlangRsamtoolsRSQLiteRsubreadrtracklayerS4ArraysS4VectorsS7scalesSeqinfosnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttxdbmakerUCSC.utilsutf8VariantAnnotationvctrsviridisLitewithrXMLxml2XVectoryaml