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

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, 2.2.4-4, 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

• ariba

• shapemapper

• breseq

• bs-seeker2

• phame

• quasitools

• panphlan

• crispresso2

• seroba

• midas

• fastq-screen

• sequana

• tophat

• metawrap

• damidseq_pipeline

• anvio

• tepid

• relocate2

• kneaddata

• maxbin2

• fusioncatcher

• micall-lite

• transabyss

• gmcloser

• pauda

• gmap-fusion

• trinity

• grid

• crispresso

• pathoscope

• srst2

• lsc

• pneumocat

• basic

• humann2

• intemap

• qcumber

• jaffa

• unicycler

• hicup

• valet

• brockman-pipeline

• meta-sparse

• bismark

• metaphlan2

• pathogen-profiler

• rapid

• smeg

• guessmylt

• ectyper

• lap

• phenix

• transposcope

• ngseqbasic

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)