Rhisat2

DOI: 10.18129/B9.bioc.Rhisat2    

R Wrapper for HISAT2 Aligner

Bioconductor version: Release (3.9)

An R interface to the HISAT2 spliced short-read aligner by Kim et al. (2015). The package contains wrapper functions to create a genome index and to perform the read alignment to the generated index.

Author: Charlotte Soneson [aut, cre]

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

Citation (from within R, enter citation("Rhisat2")):

Installation

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

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

BiocManager::install("Rhisat2")

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("Rhisat2")

 

HTML R Script Rhisat2
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews Alignment, Sequencing, Software, SplicedAlignment
Version 1.0.3
In Bioconductor since BioC 3.9 (R-3.6) (< 6 months)
License GPL-3
Depends R (>= 3.6)
Imports GenomicFeatures, SGSeq, GenomicRanges, methods, utils
LinkingTo
Suggests testthat, knitr, rmarkdown, BiocStyle
SystemRequirements GNU make
Enhances
URL https://github.com/fmicompbio/Rhisat2
BugReports https://github.com/fmicompbio/Rhisat2/issues
Depends On Me
Imports Me QuasR
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package Rhisat2_1.0.3.tar.gz
Windows Binary Rhisat2_1.0.3.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) Rhisat2_1.0.3.tgz
Source Repository git clone https://git.bioconductor.org/packages/Rhisat2
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rhisat2
Package Short Url https://bioconductor.org/packages/Rhisat2/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive

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