HTSeqGenie

DOI: 10.18129/B9.bioc.HTSeqGenie    

This is the development version of HTSeqGenie; for the stable release version, see HTSeqGenie.

A NGS analysis pipeline.

Bioconductor version: Development (3.9)

Libraries to perform NGS analysis.

Author: Gregoire Pau, Jens Reeder

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

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

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("HTSeqGenie", version = "3.9")

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 4.13.0
In Bioconductor since BioC 2.11 (R-2.15) (6 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_4.13.0.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 http://bioconductor.org/packages/HTSeqGenie/
Package Downloads Report Download Stats

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