recipe je-suite

Je is a suite to handle barcoded fastq files with (or without) Unique Molecule Identifiers (UMIs) and filter read duplicates using these UMIs

Homepage

https://gbcs.embl.de/Je

License

MIT / MIT License

Recipe

/je-suite/meta.yaml

package je-suite

(downloads) docker_je-suite

Versions

2.0.RC-0, 1.2-1, 1.2-0

Depends openjdk

>=8

Requirements

Installation

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

conda install je-suite

and update with:

conda update je-suite

or use the docker container:

docker pull quay.io/biocontainers/je-suite:<tag>

(see je-suite/tags for valid values for <tag>)

Notes

Je is Java program that comes with a wrapper shell script. By default “-Xmx4G -Xms256m” 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 “je -Xms512m -Xmx1g”