DOI: 10.18129/B9.bioc.Rhisat2  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see Rhisat2.

R Wrapper for HISAT2 Aligner

Bioconductor version: 3.16

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")):


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if (!require("BiocManager", quietly = TRUE))


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biocViews Alignment, Sequencing, Software, SplicedAlignment
Version 1.14.0
In Bioconductor since BioC 3.9 (R-3.6) (4 years)
License GPL-3
Depends R (>= 4.2)
Imports GenomicFeatures, SGSeq, GenomicRanges, methods, utils
Suggests testthat, knitr, rmarkdown, BiocStyle
SystemRequirements GNU make
URL https://github.com/fmicompbio/Rhisat2
BugReports https://github.com/fmicompbio/Rhisat2/issues
Depends On Me
Imports Me CircSeqAlignTk
Suggests Me eisaR, QuasR
Links To Me
Build Report  

Package Archives

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

Source Package Rhisat2_1.14.0.tar.gz
Windows Binary Rhisat2_1.14.0.zip (64-bit only)
macOS Binary (x86_64) Rhisat2_1.14.0.tgz
macOS Binary (arm64) Rhisat2_1.14.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Rhisat2
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rhisat2
Bioc Package Browser https://code.bioconductor.org/browse/Rhisat2/
Package Short Url https://bioconductor.org/packages/Rhisat2/
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