recipe vsearch

A versatile open source tool for metagenomics (USEARCH alternative)

Homepage:

https://github.com/torognes/vsearch

License:

GPL3 / GPL-3.0-or-later OR BSD-2-Clause

Recipe:

/vsearch/meta.yaml

Links:

biotools: vsearch, doi: 10.7717/peerj.2584

package vsearch

(downloads) docker_vsearch

versions:
2.29.1-1,  2.29.1-0,  2.29.0-0,  2.28.1-1,  2.28.1-0,  2.27.1-0,  2.27.0-1,  2.27.0-0,  2.26.1-0, 

2.29.1-1,  2.29.1-0,  2.29.0-0,  2.28.1-1,  2.28.1-0,  2.27.1-0,  2.27.0-1,  2.27.0-0,  2.26.1-0,  2.26.0-0,  2.25.0-0,  2.24.0-0,  2.23.0-0,  2.22.1-2,  2.22.1-1,  2.22.1-0,  2.21.2-0,  2.21.1-1,  2.21.1-0,  2.21.0-0,  2.20.1-0,  2.20.0-0,  2.19.0-0,  2.18.0-0,  2.17.1-0,  2.17.0-1,  2.17.0-0,  2.16.0-0,  2.15.2-1,  2.15.2-0,  2.15.1-0,  2.15.0-0,  2.14.2-0,  2.14.1-0,  2.14.0-0,  2.13.7-0,  2.13.6-0,  2.13.4-4,  2.13.4-0,  2.13.3-0,  2.13.1-0,  2.13.0-0,  2.11.1-0,  2.10.4-1,  2.10.4-0,  2.10.3-0,  2.10.2-0,  2.10.1-0,  2.10.0-0,  2.9.1-0,  2.9.0-0,  2.8.5-0,  2.8.3-0,  2.8.2-0,  2.8.1-0,  2.8.0-1,  2.8.0-0,  2.7.0-1,  2.7.0-0,  2.6.0-1,  2.6.0-0,  2.5.0-0,  2.4.4-0,  2.4.3-0,  2.4.0-0,  2.3.4-0,  2.3.2-0,  2.0.3-1,  2.0.3-0,  2.0.2-0,  2.0.0-0,  1.11.1-0,  1.10.2-0,  1.9.7-0,  1.9.5-0,  1.1.3-0

depends bzip2:

>=1.0.8,<2.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends zlib:

requirements:

additional platforms:
linux-aarch64,  osx-arm64

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install vsearch

and update with::

   mamba update vsearch

To create a new environment, run:

mamba create --name myenvname vsearch

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `vsearch/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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/vsearch/README.html)