groHMM

DOI: 10.18129/B9.bioc.groHMM    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see groHMM.

GRO-seq Analysis Pipeline

Bioconductor version: 3.8

A pipeline for the analysis of GRO-seq data.

Author: Charles G. Danko, Minho Chae, Andre Martins, W. Lee Kraus

Maintainer: Anusha Nagari <anusha.nagari at utsouthwestern.edu>, Tulip Nandu <tulip.nandu at utsouthwestern.edu>, W. Lee Kraus <lee.kraus at utsouthwestern.edu>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("groHMM")

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("groHMM")

 

PDF	R Script	groHMM tutorial
PDF		Reference Manual
Text		NEWS

Details

biocViews	Sequencing, Software
Version	1.16.0
In Bioconductor since	BioC 3.0 (R-3.1) (4.5 years)
License	GPL-3
Depends	R (>= 3.0.2), MASS, parallel, S4Vectors(>= 0.17.25), IRanges(>= 2.13.12), GenomeInfoDb, GenomicRanges(>= 1.31.8), GenomicAlignments(>= 1.15.6), rtracklayer(>= 1.39.7)
Imports
LinkingTo
Suggests	BiocStyle, GenomicFeatures, edgeR, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
SystemRequirements
Enhances
URL	https://github.com/Kraus-Lab/groHMM
BugReports	https://github.com/Kraus-Lab/groHMM/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	groHMM_1.16.0.tar.gz
Windows Binary	groHMM_1.16.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	groHMM_1.16.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/groHMM
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/groHMM
Package Short Url	http://bioconductor.org/packages/groHMM/
Package Downloads Report	Download Stats