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:

2.3.4.3-1, 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, 2.2.5-4, 2.2.5-3, 2.2.5-2, 2.2.5-1, 2.2.4-3, 2.2.4-2, 2.2.4-1, 2.2.4-0, 2.2.1-1, 2.2.1-0

Depends:

• libcxx >=4.0.1
• perl
• python >=2.7,<2.8.0a0
• tbb >=2019.3
• zlib >=1.2.11,<1.3.0a0

Required By:

• intemap
• anvio
• crispresso2
• quasitools
• metawrap
• tophat
• seroba
• qcumber
• lap
• trinity
• maxbin2
• ectyper
• pathogen-profiler
• phenix
• metaphlan2
• breseq
• bismark
• ariba
• unicycler
• tepid
• lsc
• pneumocat
• pathoscope
• transabyss
• ngseqbasic
• bs-seeker2
• grid
• rapid
• shapemapper
• relocate2
• phame
• jaffa
• brockman-pipeline
• kneaddata
• meta-sparse
• valet
• pauda
• crispresso
• fastq-screen
• gmap-fusion
• srst2
• panphlan
• hicup
• basic
• fusioncatcher
• damidseq_pipeline
• humann2
• smeg
• midas
• sequana
• transposcope

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)