This package provides an R wrapper around the HISAT2 short read aligner. The package is used by the QuasR Bioconductor package. We recommend to use QuasR instead of calling Rhisat2 directly, since it covers the whole analysis workflow of typical high-throughput sequencing experiments.
Charlotte Soneson, based partly on code from Florian Hahne
Kim D, Langmead B and Salzberg SL. HISAT: a fast spliced aligner with low memory requirements. Nature Methods 12:357-360 (2015).
hisat2, hisat2_build, hisat2_build_usage, hisat2_usage
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