recipe pepgenome

A java tool to map peptide and peptidoform evideces to ENSEMBL Genome Coordinates

Homepage

https://github.com/bigbio/pgatk/

License

Apache / Apache-2.0

Recipe

/pepgenome/meta.yaml

package pepgenome

(downloads) docker_pepgenome

Versions

1.1.beta-01.0.beta-0

Depends
Required By

Installation

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

conda install pepgenome

and update with:

conda update pepgenome

or use the docker container:

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

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

Notes

PepGenome is Java program that comes with a custom wrapper shell script. This shell wrapper is called "opsin" and is on $PATH by default. By default "-Xms512m -Xmx1g" is set in the wrapper. If you want to overwrite it you can specify these values directly after your binaries. If you have _JAVA_OPTIONS set globally this will take precedence. For example run it with "PepGenome -Xms512m -Xmx1g"