recipe bowtie2

Fast and sensitive read alignment

Homepage

http://bowtie-bio.sourceforge.net/bowtie2/index.shtml

License

GPLv3

Recipe

/bowtie2/meta.yaml

Links

biotools: bowtie2, doi: 10.1038/nmeth.1923, debian: bowtie2

package bowtie2

Versions

2.3.5-0, 2.3.4.3-1, 2.3.4.3-0, 2.3.4.2-0, 2.3.4.1-1, 2.3.4.1-0, 2.3.4-0, 2.3.3.1-0, 2.3.2-1, 2.3.0-1, 2.3.0-0, 2.2.8-2, 2.2.8-1, 2.2.8-0, 2.2.7-1, 2.2.7-0, 2.2.6-0, 2.2.5-5, 2.2.5-4, 2.2.5-3, 2.2.5-2, 2.2.5-1, 2.2.4-5, 2.2.4-4, 2.2.4-3, 2.2.4-2, 2.2.4-1, 2.2.4-0, 2.2.1-2, 2.2.1-1, 2.2.1-0

Depends

• libgcc-ng >=7.3.0

• libstdcxx-ng >=7.3.0

• perl

• python >=2.7,<2.8.0a0

• tbb >=2019.5

• zlib >=1.2.11,<1.3.0a0

Required By

• quasitools

• bioconductor-chimeraviz

• aquila_umap

• qcumber

• ectyper

• graph2pro-var

• ngseqbasic

• kneaddata

• smeg

• transabyss

• transposcope

• gmcloser

• tophat

• trinity

• shapemapper

• lap

• metaphlan2

• intemap

• jaffa

• gmap-fusion

• fastq-screen

• anvio

• relocate2

• rapid

• crispresso2

• srst2

• sequana

• humann2

• midas

• pathoscope

• valet

• seroba

• micall-lite

• metawrap

• fusioncatcher

• guessmylt

• meta-sparse

• optimir

• phenix

• bs-seeker2

• pauda

• unicycler

• tepid

• basic

• panphlan

• grid

• rgi

• pathogen-profiler

• brockman-pipeline

• ariba

• methylpy

• hicup

• bismark

• crispresso

• breseq

• damidseq_pipeline

• phame

• maxbin2

• pneumocat

• rop

• lsc

Installation

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

conda install bowtie2

and update with:

conda update bowtie2

or use the docker container:

docker pull quay.io/biocontainers/bowtie2:<tag>

(see bowtie2/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bowtie2/README.html)