DEWSeq
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see DEWSeq.
Differential Expressed Windows Based on Negative Binomial Distribution
Bioconductor version: 3.19
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("DEWSeq")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("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")
Analyzing eCLIP/iCLIP data with DEWSeq | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | DifferentialExpression, FunctionalGenomics, GeneRegulation, Sequencing, Software |
Version | 1.18.0 |
In Bioconductor since | BioC 3.10 (R-3.6) (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 |
System Requirements | |
URL | https://github.com/EMBL-Hentze-group/DEWSeq/ |
Bug Reports | https://github.com/EMBL-Hentze-group/DEWSeq/issues |
See More
Suggests | knitr, tidyverse, rmarkdown, testthat, BiocStyle, IHW |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | DEWSeq_1.18.0.tar.gz |
Windows Binary (x86_64) | DEWSeq_1.18.0.zip |
macOS Binary (x86_64) | DEWSeq_1.18.0.tgz |
macOS Binary (arm64) | DEWSeq_1.18.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/DEWSeq |
Source Repository (Developer Access) | git clone [email protected]:packages/DEWSeq |
Bioc Package Browser | https://code.bioconductor.org/browse/DEWSeq/ |
Package Short Url | https://bioconductor.org/packages/DEWSeq/ |
Package Downloads Report | Download Stats |