Package: Rhisat2
Type: Package
Title: R Wrapper for HISAT2 Aligner
Version: 1.29.1
Authors@R: c(person("Charlotte", "Soneson", role = c("aut", "cre"), 
    email = "charlottesoneson@gmail.com", comment = c(ORCID = "0000-0003-3833-2169")))
SystemRequirements: GNU make
Description: 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.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 4.4.0)
Suggests: testthat, knitr, rmarkdown, BiocStyle
VignetteBuilder: knitr
biocViews: Alignment, Sequencing, SplicedAlignment
Imports: txdbmaker, SGSeq, GenomicRanges, methods, utils
URL: https://github.com/fmicompbio/Rhisat2
BugReports: https://github.com/fmicompbio/Rhisat2/issues
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: libglpk-dev make libbz2-dev libicu-dev liblzma-dev
        libpng-dev libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-07-29 18:06:55 UTC
RemoteUrl: https://github.com/bioc/Rhisat2
RemoteRef: HEAD
RemoteSha: 05a1f28550565a07556a669f95d3c5613e9964eb
NeedsCompilation: yes
Packaged: 2026-10-31 11:56:22 UTC; root
Author: Charlotte Soneson [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-3833-2169>)
Maintainer: Charlotte Soneson <charlottesoneson@gmail.com>