Package: APAlyzer 1.21.0

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_1.21.0.tar.gz
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APAlyzer.pdf |APAlyzer.html✨
APAlyzer/json (API)
NEWS

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

Peer review:

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

On BioConductor:APAlyzer-1.21.0(bioc 3.21)APAlyzer-1.20.0(bioc 3.20)

sequencingrnaseqdifferentialexpressiongeneexpressiongeneregulationannotationdataimportsoftwareative-polyadenylationbioinformatics-toolrna-seq

5.75 score 7 stars 9 scripts 188 downloads 4 mentions 12 exports 113 dependencies

Last updated 2 months agofrom:7a59a45ab2. Checks:OK: 1 WARNING: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 19 2024
R-4.5-winWARNINGDec 19 2024
R-4.5-linuxWARNINGDec 19 2024
R-4.4-winWARNINGDec 19 2024
R-4.4-macWARNINGDec 19 2024
R-4.3-winWARNINGDec 19 2024
R-4.3-macWARNINGDec 19 2024

Exports:APABoxAPAdiffAPAVolcanodownload_testbamGENEXP_CDSPAS2GEFPASEXP_3UTRPASEXP_IPAREF3UTRREF4PASREFCDSThreeMostPairBam

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobBSgenomecachemclicodetoolscolorspacecpp11crayoncurldata.tableDBIDelayedArrayDESeq2digestdplyrfansifarverfastmapfdrtoolformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2ggrepelgluegtablehttrHybridMTestIRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelifecyclelocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeopensslpillarpkgconfigplogrplyrpngpurrrR.cacheR.methodsS3R.ooR.utilsR6RColorBrewerRcppRcppArmadilloRCurlrepmisrestfulrRhtslibrjsonrlangRsamtoolsRSQLiteRsubreadrtracklayerS4ArraysS4VectorsscalessnowSparseArraystringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselectUCSC.utilsutf8VariantAnnotationvctrsviridisLitewithrXMLXVectoryamlzlibbioc

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

Ruijia Wang, Bin Tian

Rendered fromAPAlyzer.Rmdusingknitr::rmarkdownon Dec 19 2024.

Last update: 2022-03-01
Started: 2019-07-13