recipe mist_typing

MiST is a rapid, accurate and flexible (core-genome) multi-locus sequence typing (MLST) allele caller.

Homepage:

https://github.com/BioinformaticsPlatformWIV-ISP/MiST

License:

GPL / GPL-3.0-or-later

Recipe:

/mist_typing/meta.yaml

package mist_typing

versions:

0.0.2-1,  0.0.2-0

depends biopython:

depends bs4:

depends cd-hit:

>=4.6.8

depends furl:

depends minimap2:

>=2.26

depends mummer4:

depends pandas:

>2

depends python:

>=3.10

depends pyyaml:

depends rauth:

depends requests:

requirements:

additional platforms:

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 mist_typing

and update with::

   mamba update mist_typing

To create a new environment, run:

mamba create --name myenvname mist_typing

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/mist_typing:<tag>

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

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