APAlyzer

DOI: 10.18129/B9.bioc.APAlyzer    

This is the development version of APAlyzer; to use it, please install the devel version of Bioconductor.

A toolkit for APA analysis using RNA-seq data

Bioconductor version: Development (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>

Citation (from within R, enter citation("APAlyzer")):

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 0.99.2
In Bioconductor since BioC 3.10 (R-3.6)
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_0.99.2.tar.gz
Windows Binary APAlyzer_0.99.2.zip
Mac OS X 10.11 (El Capitan) APAlyzer_0.99.2.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 http://bioconductor.org/packages/APAlyzer/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: