HTSeqGenie

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see HTSeqGenie.

A NGS analysis pipeline.

Bioconductor version: 3.19

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")):

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


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("HTSeqGenie")

For older versions of R, please refer to the appropriate Bioconductor release.

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("HTSeqGenie")

HTSeqGenie PDF R Script

Reference Manual PDF

NEWS Text

biocViews Software

Version 4.34.0

In Bioconductor since BioC 2.11 (R-2.15) (12 years)

License Artistic-2.0

Depends R (>= 3.5.0), 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), pwalign, 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

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

Windows Binary (x86_64)

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Source Repository git clone https://git.bioconductor.org/packages/HTSeqGenie

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/HTSeqGenie

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