DEWSeq

DOI:10.18129/B9.bioc.DEWSeq

This is thedevelopmentversion of DEWSeq; for the stable release version, seeDEWSeq.

Differential Expressed Windows Based on Negative Binomial Distribution

Bioconductor version: Development (3.16)

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

Installation

To install this package, start R (version "4.2") 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 appropriateBioconductor release.

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("DEWSeq")

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

Details

biocViews	DifferentialExpression,FunctionalGenomics,GeneRegulation,Sequencing,Software
Version	1.11.0
In Bioconductor since	BioC 3.10 (R-3.6) (3 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

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	DEWSeq_1.11.0.tar.gz
Windows Binary	DEWSeq_1.11.0.zip
macOS 10.13 (High Sierra)	DEWSeq_1.11.0.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	//www.andersvercelli.com/packages/DEWSeq/
Package Downloads Report	Download Stats