recipe strainseeker

A bacterial identification program for fast identification of bacterial strains from raw sequencing reads

Homepage:

http://bioinfo.ut.ee/strainseeker

Developer docs:

https://github.com/bioinfo-ut/StrainSeeker.git

License:

BSD

Recipe:

/strainseeker/meta.yaml

package strainseeker

(downloads) docker_strainseeker

versions:

1.5.1-4,  1.5.1-3,  1.5.1-2,  1.5.1-1,  1.5.1-0

depends libgcc-ng:

>=12

depends perl:

depends r-base:

depends zlib:

requirements:

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 strainseeker

and update with::

   mamba update strainseeker

To create a new environment, run:

mamba create --name myenvname strainseeker

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/strainseeker:<tag>

(see `strainseeker/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/strainseeker/README.html)