APAlyzer

DOI: 10.18129/B9.bioc.APAlyzer    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see APAlyzer.

A toolkit for APA analysis using RNA-seq data

Bioconductor version: 3.10

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

Author: Ruijia Wang [cre, aut] , Bin Tian [aut]

Maintainer: Ruijia Wang <rjwang.bioinfo at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("APAlyzer")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("APAlyzer")

 

HTML	R Script	APAlyzer: toolkit for RNA-seq APA analysis
PDF		Reference Manual
Text		NEWS

Details

biocViews	Annotation, DataImport, DifferentialExpression, GeneExpression, GeneRegulation, RNASeq, Sequencing, Software
Version	1.0.0
In Bioconductor since	BioC 3.10 (R-3.6) (< 6 months)
License	LGPL-3
Depends
Imports	GenomicRanges, GenomicFeatures, GenomicAlignments, DESeq, SummarizedExperiment, Rsubread, stats, methods
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle, org.Mm.eg.db, AnnotationDbi, TBX20BamSubset, Rsamtools, ggplot2, testthat
SystemRequirements
Enhances
URL	https://github.com/RJWANGbioinfo/APAlyzer/
BugReports	https://github.com/RJWANGbioinfo/APAlyzer/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	APAlyzer_1.0.0.tar.gz
Windows Binary	APAlyzer_1.0.0.zip
Mac OS X 10.11 (El Capitan)	APAlyzer_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/APAlyzer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/APAlyzer
Package Short Url	https://bioconductor.org/packages/APAlyzer/
Package Downloads Report	Download Stats