recipe seqsero2

Salmonella serotype prediction from genome sequencing data

Homepage

https://github.com/denglab/SeqSero2

License

GPL / GPLv2

Recipe

/seqsero2/meta.yaml

Links

doi: 10.1128/AEM.01746-19

package seqsero2

Versions

1.2.1-0,  1.1.1-0,  1.01-0,  1.1.0-0,  1.0.2-0,  1.0.1-0

Depends

• bedtools 2.17.0.*

• biopython 1.73.*

• blast >=2.2.28

• bwa >=0.7.12

• python >=3

• salmid 0.1.23.*

• samtools >=1.8

• spades >=3.9.0

• sra-tools >=2.8.0

Required By

Installation

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

conda install seqsero2

and update with:

conda update seqsero2

or use the docker container:

docker pull quay.io/biocontainers/seqsero2:<tag>

(see seqsero2/tags for valid values for <tag>)

Download stats

Link to this page

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