PyocinTyper

Type pyocins of Pseudomonas aeruginosa.

Dependencies

Nextflow
Install nextflow following the instructions at https://www.nextflow.io/docs/latest/getstarted.html.

cd-hit
Install cd-hit following the instructions at https://github.com/weizhongli/cdhit.

Anaconda
This pipeline is enabled with conda. Install conda at https://anaconda.org/.

All dependencies must be added to path.

Via github:

git clone https://github.com/GaTechBrownLab/PyocinTyper.git

Via nextflow:

nextflow pull GaTechBrownLab/PyocinTyper

Basic usage:

nextflow run main.nf -with-conda --pt_option <group|individual> --input_files "./data/*.gbff" --outdir "/results"

nextflow run main.nf --help

Name		Name	Last commit message	Last commit date
Latest commit History 30 Commits
bin		bin
data		data
envs		envs
modules		modules
references		references
workflows		workflows
.gitattributes		.gitattributes
README.md		README.md
main.nf		main.nf
nextflow.config		nextflow.config