recipe ectyper

ECTyper is a python program for serotyping E. coli genomes

Homepage

https://github.com/phac-nml/ecoli_serotyping

License

Apache 2

Recipe

/ectyper/meta.yaml

package ectyper

(downloads) docker_ectyper

Versions

0.8.1-0, 0.5.4-2, 0.1-2, 0.1-0

Depends bcftools

>=1.8

Depends biopython

>=1.7.1

Depends blast

>=2.7.1

Depends bowtie2

>=2.3.4.1

Depends mash

>=2.0

Depends pandas

>=0.23.1

Depends pytest

>=3.5

Depends python

>=3.5

Depends samtools

>=1.8

Depends seqtk

>=1.2

Requirements

Installation

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

conda install ectyper

and update with:

conda update ectyper

or use the docker container:

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

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