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groHMM

GRO-seq Analysis Pipeline


Bioconductor version: Release (3.19)

A pipeline for the analysis of GRO-seq data.

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

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

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("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")
groHMM tutorial PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Sequencing, Software
Version 1.38.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 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
System Requirements
URL https://github.com/Kraus-Lab/groHMM
Bug Reports https://github.com/Kraus-Lab/groHMM/issues
See More
Suggests BiocStyle, GenomicFeatures, edgeR, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
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 groHMM_1.38.0.tar.gz
Windows Binary groHMM_1.38.0.zip
macOS Binary (x86_64) groHMM_1.38.0.tgz
macOS Binary (arm64) groHMM_1.38.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/groHMM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/groHMM
Bioc Package Browser https://code.bioconductor.org/browse/groHMM/
Package Short Url https://bioconductor.org/packages/groHMM/
Package Downloads Report Download Stats