DEScan2

DOI: 10.18129/B9.bioc.DEScan2    

This is the development version of DEScan2; to use it, please install the devel version of Bioconductor.

Differential Enrichment Scan 2

Bioconductor version: Development (3.7)

Integrated peak and differential caller, specifically designed for broad epigenomic signals.

Author: Dario Righelli [aut, cre], John Koberstein [aut], Bruce Gomes [aut], Nancy Zhang [aut], Claudia Angelini [aut], Lucia Peixoto [aut], Davide Risso [aut]

Maintainer: Dario Righelli <dario.righelli at gmail.com>

Citation (from within R, enter citation("DEScan2")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("DEScan2")

Documentation

HTML R Script DEScan2 Vignette
PDF   Reference Manual
Text   NEWS

Details

biocViews Coverage, Epigenetics, PeakDetection, Sequencing, Software
Version 0.99.9
License Artistic-2.0
Depends R (>= 3.5), GenomicRanges
Imports BiocGenerics, ChIPpeakAnno, data.table, DelayedArray, GenomeInfoDb, GenomicAlignments, glue, IRanges, plyr, Rcpp (>= 0.12.13), rtracklayer, S4Vectors, SummarizedExperiment, tools, utils
LinkingTo Rcpp, RcppArmadillo
Suggests BiocStyle, knitr, rmarkdown, testthat, edgeR, limma, EDASeq, RUVSeq, RColorBrewer, statmod
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package DEScan2_0.99.9.tar.gz
Windows Binary DEScan2_0.99.9.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) DEScan2_0.99.9.tgz
Source Repository git clone https://git.bioconductor.org/packages/DEScan2
Package Short Url http://bioconductor.org/packages/DEScan2/
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: