recipe spotyping

SpoTyping: fast and accurate in silico Mycobacterium spoligotyping from sequence reads

Homepage:

https://github.com/xiaeryu/SpoTyping

License:

GPL / GPL-3

Recipe:

/spotyping/meta.yaml

Links:

DOI: 10.1186/s13073-016-0270-7

package spotyping

(downloads) docker_spotyping

versions:

2.1-4,  2.1-3,  2.1-2,  2.1-1,  2.1-0

depends blast:

depends python:

<3

depends r-gdata:

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 spotyping

and update with::

   mamba update spotyping

To create a new environment, run:

mamba create --name myenvname spotyping

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/spotyping:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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