DEWSeq

DOI: 10.18129/B9.bioc.DEWSeq  

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

Differential Expressed Windows Based on Negative Binomial Distribution

Bioconductor version: Development (3.18)

DEWSeq is a sliding window approach for the analysis of differentially enriched binding regions eCLIP or iCLIP next generation sequencing data.

Author: Sudeep Sahadevan [aut], Thomas Schwarzl [aut], bioinformatics team Hentze [aut, cre]

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

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

Installation

To install this package, start R (version "4.3") and enter:

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

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

BiocManager::install("DEWSeq")

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

Documentation

PDF   Reference Manual

Details

biocViews DifferentialExpression, FunctionalGenomics, GeneRegulation, Sequencing, Software
Version 1.15.0
In Bioconductor since BioC 3.10 (R-3.6) (3.5 years)
License LGPL (>= 3)
Depends R (>= 4.0.0), R.utils, 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
Windows Binary DEWSeq_1.15.0.zip
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/DEWSeq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DEWSeq
Bioc Package Browser https://code.bioconductor.org/browse/DEWSeq/
Package Short Url https://bioconductor.org/packages/DEWSeq/
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: