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Last pushed: 7 months ago
Short Description
Container to run CEGMA optimised for GenomeHubs
Full Description

CEGMA docker container

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CEGMA docker container built from hub.docker.com/r/robsyme/cegma-docker with modifications to make it easier to use as a GenomeHubs container by running as UID 1000, separating input and output directories and renaming output files.

docker run -d \
           --name genomehubs-cegma \
           -v `pwd`/sequence:/in \
           -v `pwd`/cegma:/out \
           -e ASSEMBLY=scaffolds.fa.gz \
           genomehubs/cegma:latest

Writes scaffolds.fa.completeness_report.txt and scaffolds.fa.cegma.gff to the directoy mounted at /out.

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genomehubs

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