recipe cat

CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)

Homepage:

https://github.com/MGXlab/CAT_pack

License:

MIT / MIT

Recipe:

/cat/meta.yaml

package cat

(downloads) docker_cat

versions:
6.0.1-1,  6.0.1-0,  5.3-0,  5.2.3-1,  5.2.3-0,  5.2.2-0,  5.2.1-0,  5.2-0,  5.1.2-0, 

6.0.1-1,  6.0.1-0,  5.3-0,  5.2.3-1,  5.2.3-0,  5.2.2-0,  5.2.1-0,  5.2-0,  5.1.2-0,  5.1.1-0,  5.1-0,  5.0.5-0,  5.0.4-0,  5.0.3-0,  5.0.2-0,  5.0.1-0,  5.0-0,  4.6-0,  4.3.3-0,  4.3.1-1

depends bwa:

depends diamond:

depends prodigal:

depends python:

>=3

depends samtools:

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 cat

and update with::

   mamba update cat

To create a new environment, run:

mamba create --name myenvname cat

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/cat:<tag>

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

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