recipe gtdbtk

A toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

Homepage

https://github.com/Ecogenomics/GTDBTk

License

GPL3 / GNU General Public v3 (GPLv3)

Recipe

/gtdbtk/meta.yaml

Links

doi: 10.1093/bioinformatics/btz848

package gtdbtk

Versions

1.5.1-0,  1.5.0-0,  1.4.1-1,  1.4.1-0,  1.4.0-1,  1.4.0-0,  1.3.0-2,  1.3.0-1,  1.3.0-0, 

1.5.1-0,  1.5.0-0,  1.4.1-1,  1.4.1-0,  1.4.0-1,  1.4.0-0,  1.3.0-2,  1.3.0-1,  1.3.0-0,  1.2.0-1,  1.2.0-0,  1.1.1-0,  1.1.0-0,  1.0.2-3,  1.0.2-2,  1.0.2-1,  1.0.2-0,  1.0.1-1,  1.0.1-0,  1.0.0-0,  0.3.3-0,  0.3.2-2,  0.3.2-1,  0.3.2-0,  0.3.1-0,  0.3.0-1,  0.3.0-0,  0.2.2-0,  0.1.6-0,  0.1.5-0,  0.1.3-0

Depends

• dendropy >=4.1.0

• fastani >=1.32

• fasttree >=2.1.9

• hmmer 3.1b2

• mash >=2.0

• numpy >=1.9.0

• pplacer >=1.1.alpha17

• prodigal >=2.6.2

• python >=3.6

• tqdm >=4.31.0

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install gtdbtk

and update with:

conda update gtdbtk

or use the docker container:

docker pull quay.io/biocontainers/gtdbtk:<tag>

(see gtdbtk/tags for valid values for <tag>)

Link to this page

Render an 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/gtdbtk/README.html)