Package: MAAPER 1.1.1

Wei Vivian Li

MAAPER: Analysis of Alternative Polyadenylation Using 3' End-Linked Reads

A computational method developed for model-based analysis of alternative polyadenylation (APA) using 3' end-linked reads. It accurately assigns 3' RNA-seq reads to polyA sites through statistical modeling, and generates multiple statistics for APA analysis. Please also see Li WV, Zheng D, Wang R, Tian B (2021) <doi:10.1186/s13059-021-02429-5>.

Authors:Wei Vivian Li [aut, cre]

MAAPER_1.1.1.tar.gz
MAAPER_1.1.1.zip(r-4.5)MAAPER_1.1.1.zip(r-4.4)MAAPER_1.1.1.zip(r-4.3)
MAAPER_1.1.1.tgz(r-4.4-any)MAAPER_1.1.1.tgz(r-4.3-any)
MAAPER_1.1.1.tar.gz(r-4.5-noble)MAAPER_1.1.1.tar.gz(r-4.4-noble)
MAAPER_1.1.1.tgz(r-4.4-emscripten)MAAPER_1.1.1.tgz(r-4.3-emscripten)
MAAPER.pdf |MAAPER.html
MAAPER/json (API)

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

Peer review:

Bug tracker:https://github.com/vivianstats/maaper/issues

On CRAN:

alternative-polyadenylationbioinformatics-toolrna-seq

4.48 score 6 stars 7 scripts 189 downloads 1 mentions 1 exports 69 dependencies

Last updated 3 years agofrom:907b16cb8c. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 11 2024
R-4.5-winOKOct 11 2024
R-4.5-linuxOKOct 11 2024
R-4.4-winOKOct 11 2024
R-4.4-macOKOct 11 2024
R-4.3-winOKOct 11 2024
R-4.3-macOKOct 11 2024

Exports:maaper

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobcachemclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapformatRfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesgluehttrIRangesjsonliteKEGGRESTlambda.rlatticelifecycleMASSMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpkgconfigplogrpngR6RCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorssnowSparseArraySummarizedExperimentsysUCSC.utilsvctrsXMLXVectoryamlzlibbioc

Introduction to MAAPER

Rendered fromvignette.Rmdusingknitr::rmarkdownon Oct 11 2024.

Last update: 2021-07-28
Started: 2021-06-25