recipe hisat2

Graph-based alignment of next generation sequencing reads to a population of genomes.

Homepage

http://daehwankimlab.github.io/hisat2

Documentation

https://daehwankimlab.github.io/hisat2/manual/

Developer docs

https://github.com/DaehwanKimLab/hisat2

License

GPL / GPL-3.0

Recipe

/hisat2/meta.yaml

Links

biotools: HISAT2, doi: 10.1038/nmeth.3317, doi: 10.1038/s41587-019-0201-4, usegalaxy-eu: hisat2

HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes as well as to a single reference genome.

package hisat2

(downloads) docker_hisat2

Versions
2.2.1-22.2.1-02.2.0-42.2.0-32.2.0-22.2.0-12.2.0-02.1.0-42.1.0-3

2.2.1-22.2.1-02.2.0-42.2.0-32.2.0-22.2.0-12.2.0-02.1.0-42.1.0-32.1.0-22.1.0-12.1.0-02.0.5-22.0.5-12.0.4-12.0.4-02.0.3beta-02.0.2beta-02.0.1beta-02.0.0beta-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install hisat2

and update with:

conda update hisat2

or use the docker container:

docker pull quay.io/biocontainers/hisat2:<tag>

(see hisat2/tags for valid values for <tag>)

Notes

Pre-built indices for HISAT2 can be downloaded from https://daehwankimlab.github.io/hisat2/download/.