recipe bactopia-qc

The methods used in Bactopia for read QC

Homepage:

https://bactopia.github.io/

Developer docs:

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

License:

MIT

Recipe:

/bactopia-qc/meta.yaml

Links:

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

package bactopia-qc

Versions:

1.0.1-0,  1.0.0-0

Depends:

• bbmap >=39.01

• biopython 1.77.*

• coreutils

• fastp >=0.23.2

• fastq-scan >=1.0.1

• fastqc >=0.11.9

• gsl 2.6.*

• lighter >=1.1.2

• nanoplot >=1.40.2

• nanoq >=0.9.0

• pigz

• porechop >=0.2.4

• python >=3.7,<3.11

• rasusa >=0.7.0

• rename

• sed

Required By:

Installation

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

conda install bactopia-qc

and update with:

conda update bactopia-qc

or use the docker container:

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

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

Download stats

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