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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>.

Version: 1.1.1
Imports: parallel, GenomicRanges, GenomicAlignments, GenomicFeatures, GenomeInfoDb, stats, utils, Rsamtools, IRanges, MASS
Suggests: knitr, rmarkdown
Published: 2021-08-14
DOI: 10.32614/CRAN.package.MAAPER
Author: Wei Vivian Li ORCID iD [aut, cre]
Maintainer: Wei Vivian Li <vivian.li at rutgers.edu>
License: GPL-3
URL: https://github.com/Vivianstats/MAAPER, https://genomebiology.biomedcentral.com/articles/10.1186/s13059-021-02429-5
NeedsCompilation: no
In views: Omics
CRAN checks: MAAPER results

Documentation:

Reference manual: MAAPER.pdf
Vignettes: MAAPER: Model-based analysis of alternative polyadenylation using 3' end-linked reads

Downloads:

Package source: MAAPER_1.1.1.tar.gz
Windows binaries: r-devel: MAAPER_1.1.1.zip, r-release: MAAPER_1.1.1.zip, r-oldrel: MAAPER_1.1.1.zip
macOS binaries: r-release (arm64): MAAPER_1.1.1.tgz, r-oldrel (arm64): MAAPER_1.1.1.tgz, r-release (x86_64): MAAPER_1.1.1.tgz, r-oldrel (x86_64): MAAPER_1.1.1.tgz
Old sources: MAAPER archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=MAAPER to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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