recipe dfast_qc

DFAST_QC: Taxonomy and completeness check for prokaryotic genomes

Homepage:

https://dfast.nig.ac.jp

Developer docs:

https://github.com/nigyta/dfast_qc

License:

GPLv3

Recipe:

/dfast_qc/meta.yaml

package dfast_qc

versions:

1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.4-0,  1.0.2-0,  1.0.1-0,  1.0.0-0,  0.5.7-0,  0.5.6-0, 

1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.4-0,  1.0.2-0,  1.0.1-0,  1.0.0-0,  0.5.7-0,  0.5.6-0,  0.5.5-0,  0.5.1-0,  0.4.2-0,  0.4.1-0,  0.2.9-0,  0.2.8-0,  0.2.7-0,  0.2.6-1,  0.2.6-0,  0.2.5-1,  0.2.5-0

depends checkm-genome:

1.2.2

depends ete3:

depends gsl:

2.6

depends hmmer:

depends mash:

depends more-itertools:

depends peewee:

depends prodigal:

depends python:

>=3.8

depends skani:

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 dfast_qc

and update with::

   mamba update dfast_qc

To create a new environment, run:

mamba create --name myenvname dfast_qc

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/dfast_qc:<tag>

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

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