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Bioconductor - APAlyzer (development version)

APAlyzer

This is the development version of APAlyzer; for the stable release version, see APAlyzer.

A toolkit for APA analysis using RNA-seq data

Bioconductor version: Development (3.22)

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

Author: Ruijia Wang [cre, aut] ORCID: 0000-0002-4211-5207 , Bin Tian [aut], Wei-Chun Chen [aut]

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

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

To install this package, start R (version "4.5") and enter:


if (!require("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")
Details biocViews Annotation, DataImport, DifferentialExpression, GeneExpression, GeneRegulation, RNASeq, Sequencing, Software Version 1.23.0 In Bioconductor since BioC 3.10 (R-3.6) (5.5 years) License LGPL-3 Depends R (>= 3.5.0) Imports GenomicRanges, GenomicFeatures, GenomicAlignments, DESeq2, ggrepel, SummarizedExperiment, Rsubread, stats, ggplot2, methods, rtracklayer, VariantAnnotation, dplyr, tidyr, repmis, Rsamtools, HybridMTest System Requirements URL https://github.com/RJWANGbioinfo/APAlyzer/ Bug Reports https://github.com/RJWANGbioinfo/APAlyzer/issues See More Package Archives

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

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