recipe kat

KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kmer counts.

Homepage:

https://github.com/TGAC/KAT

Documentation:

https://kat.readthedocs.io/en/latest

License:

GPL3 / GPL-3.0-or-later

Recipe:

/kat/meta.yaml

Links:

biotools: kat, doi: 10.1093/bioinformatics/btw663

package kat

(downloads) docker_kat

versions:
2.4.2-5,  2.4.2-3,  2.4.2-2,  2.4.2-1,  2.4.2-0,  2.4.1-3,  2.4.1-2,  2.4.1-1,  2.4.0-3, 

2.4.2-5,  2.4.2-3,  2.4.2-2,  2.4.2-1,  2.4.2-0,  2.4.1-3,  2.4.1-2,  2.4.1-1,  2.4.0-3,  2.4.0-2,  2.4.0-1,  2.3.4-1,  2.3.4-0,  2.3.1-2,  2.3.1-1,  2.0.8-4,  2.0.8-3,  2.0.8-2,  2.0.8-1,  2.0.8-0

depends boost-cpp:

<1.84.0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends matplotlib-base:

depends numpy:

>=1.22.4,<2.0a0

depends python:

>=3.9,<3.10.0a0

depends python_abi:

3.9.* *_cp39

depends scipy:

depends tabulate:

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 kat

and update with::

   mamba update kat

To create a new environment, run:

mamba create --name myenvname kat

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/kat:<tag>

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