HTSeqGenie

DOI: 10.18129/B9.bioc.HTSeqGenie    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see HTSeqGenie.

A NGS analysis pipeline.

Bioconductor version: 3.9

Libraries to perform NGS analysis.

Author: Gregoire Pau, Jens Reeder

Maintainer: Jens Reeder <reeder.jens at gene.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("HTSeqGenie")

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("HTSeqGenie")

 

PDF	R Script	HTSeqGenie
PDF		Reference Manual
Text		NEWS

Details

biocViews	Software
Version	4.14.0
In Bioconductor since	BioC 2.11 (R-2.15) (7 years)
License	Artistic-2.0
Depends	R (>= 3.0.0), gmapR(>= 1.8.0), ShortRead(>= 1.19.13), VariantAnnotation(>= 1.8.3)
Imports	BiocGenerics(>= 0.2.0), S4Vectors(>= 0.9.25), IRanges(>= 1.21.39), GenomicRanges(>= 1.23.21), Rsamtools(>= 1.8.5), Biostrings(>= 2.24.1), chipseq(>= 1.6.1), hwriter (>= 1.3.0), Cairo (>= 1.5.5), GenomicFeatures(>= 1.9.31), BiocParallel, parallel, tools, rtracklayer(>= 1.17.19), GenomicAlignments, VariantTools(>= 1.7.7), GenomeInfoDb, SummarizedExperiment, methods
LinkingTo
Suggests	TxDb.Hsapiens.UCSC.hg19.knownGene, LungCancerLines, org.Hs.eg.db
SystemRequirements
Enhances
URL
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	HTSeqGenie_4.14.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository	git clone https://git.bioconductor.org/packages/HTSeqGenie
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HTSeqGenie
Package Short Url	https://bioconductor.org/packages/HTSeqGenie/
Package Downloads Report	Download Stats