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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

Reference Manual PDF

Details

biocViews DifferentialExpression, FunctionalGenomics, GeneRegulation, Sequencing, Software
Version 1.15.0
In Bioconductor since BioC 3.10 (R-3.6) (4 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
Linking To
Suggests knitr, rmarkdown, testthat, BiocStyle, IHW
System Requirements
Enhances
URL https://github.com/EMBL-Hentze-group/DEWSeq/
Bug Reports https://github.com/EMBL-Hentze-group/DEWSeq/issues
See More
Depends On Me
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Build Report  

Package Archives

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

Source Package
Windows Binary DEWSeq_1.15.0.zip (64-bit only)
macOS Binary (x86_64) DEWSeq_1.15.0.tgz
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/
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