DEWSeq

DOI: 10.18129/B9.bioc.DEWSeq    

Differential Expressed Windows Based on Negative Binomial Distribution

Bioconductor version: Release (3.10)

Differential expression analysis of windows for next-generation sequencing data like eCLIP or iCLIP data.

Author: Sudeep Sahadevan <sahadeva at embl.de>, Thomas Schwarzl <schwarzl at embl.de>

Maintainer: Hentze bioinformatics team <biohentze at embl.de>

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

Installation

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

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

BiocManager::install("DEWSeq")

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("DEWSeq")

 

HTML R Script Analyzing eCLIP/iCLIP data with DEWSeq
PDF   Reference Manual
Text   README
Text   NEWS

Details

biocViews DifferentialExpression, FunctionalGenomics, GeneRegulation, Sequencing, Software
Version 1.0.0
In Bioconductor since BioC 3.10 (R-3.6) (< 6 months)
License LGPL (>= 3)
Depends R (>= 3.6.0), DESeq2, BiocParallel
Imports BiocGenerics, data.table (>= 1.11.8), GenomeInfoDb, GenomicRanges, methods, S4Vectors, SummarizedExperiment, stats, utils
LinkingTo
Suggests knitr, rmarkdown, testthat, BiocStyle, IHW
SystemRequirements
Enhances
URL https://github.com/EMBL-Hentze-group/DEWSeq/
BugReports https://github.com/EMBL-Hentze-group/DEWSeq/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 DEWSeq_1.0.0.tar.gz
Windows Binary DEWSeq_1.0.0.zip
Mac OS X 10.11 (El Capitan) DEWSeq_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/DEWSeq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DEWSeq
Package Short Url https://bioconductor.org/packages/DEWSeq/
Package Downloads Report Download Stats

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