recipe bactopia-gather

The methods used in Bactopia to gather all samples into one place

Homepage:

https://bactopia.github.io/

Developer docs:

https://github.com/bactopia/bactopia-gather/

License:

MIT

Recipe:

/bactopia-gather/meta.yaml

Links:

biotools: bactopia, doi: 10.1128/mSystems.00190-20

package bactopia-gather

Versions:

1.0.2-0,  1.0.1-0,  1.0.0-0

Depends:

• art >=2016.06.05

• bbmap >=39.01

• biopython 1.77.*

• coreutils

• fastq-dl >=2.0.0

• fastq-scan >=1.0.1

• gsl 2.6.*

• mash >=2.3

• ncbi-genome-download >=0.3.1

• pigz

• python >=3.9,<3.11

• rename

• sed

• sra-tools >=3.0.1

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bactopia-gather

and update with:

conda update bactopia-gather

or use the docker container:

docker pull quay.io/biocontainers/bactopia-gather:<tag>

(see bactopia-gather/tags for valid values for <tag>)

Download stats

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