DEWSeq

Differential Expressed Windows Based on Negative Binomial Distribution

Bioconductor version: 3.23 · Package version: 1.26.0

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

Installation

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

BiocManager::install("DEWSeq")

Maintainer	bioinformatics team Hentze <biohentze@embl.de>
Author	Sudeep Sahadevan [aut], Thomas Schwarzl [aut], bioinformatics team Hentze [aut, cre]
License	LGPL (>= 3)
URL	https://github.com/EMBL-Hentze-group/DEWSeq/
Bug Reports	https://github.com/EMBL-Hentze-group/DEWSeq/issues
Downloads rank	336
Source branch	RELEASE_3_23
biocViews	DifferentialExpression, FunctionalGenomics, GeneRegulation, Sequencing, Software

Dependencies

Depends: R (>= 4.0.0), R.utils, DESeq2, BiocParallel

Imports: BiocGenerics, data.table (>= 1.11.8), Seqinfo, GenomicRanges, methods, S4Vectors, SummarizedExperiment, stats, utils

Suggests: knitr, tidyverse, rmarkdown, testthat, BiocStyle, IHW