recipe seqscreen

SeqScreen was created to sensitively assign taxonomic classifications, functional annotations, and biological processes of interest to single, short DNA sequences (50bp-1,000bp).

Homepage:

https://gitlab.com/treangenlab/seqscreen/-/wikis/home

License:

GPL3

Recipe:

/seqscreen/meta.yaml

package seqscreen

Versions:

3.1-0,  3.0-1,  3.0-0,  2.2-0,  2.1-0,  2.0.2-0,  2.0.1-0,  2.0-1,  2.0-0, 

3.1-0,  3.0-1,  3.0-0,  2.2-0,  2.1-0,  2.0.2-0,  2.0.1-0,  2.0-1,  2.0-0,  1.6.4-2,  1.6.4-1,  1.6.4-0,  1.6.3-0,  1.6.2-0,  1.6.1-0,  1.6.0-0,  1.5.11-0,  1.5.10-0,  1.5.9-0,  1.5.8-0,  1.5.7-0,  1.5.6-0,  1.5.4-0,  1.5.3-0,  1.5.2-0,  1.5.0-0,  1.4.14-1,  1.4.14-0,  1.4.12-0,  1.4.11-0,  1.4.10-0,  1.4.9-0,  1.4.8-0,  1.4.7-0,  1.4.6-0,  1.4.5-0,  1.4.4-0,  1.4.3-0,  1.4.2-0,  1.4.1-0,  1.4.0-1,  1.4.0-0,  1.3.1-0,  1.3.0-1,  1.3.0-0

Depends:

• biopython

• bitarray

• blast >=2.10

• bowtie2

• centrifuge-core

• diamond >=2

• gdrive

• hmmer

• intervaltree

• jinja2

• mmseqs2

• mummer

• nextflow 21.10.6.*

• python >=3

• rapsearch

• scikit-learn

• scipy

• time

Required By:

Installation

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

conda install seqscreen

and update with:

conda update seqscreen

or use the docker container:

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

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

Download stats

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/seqscreen/README.html)