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glimmer

A docker image for running Glimmer.

Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses

Running

The Docker image built by the Dockerfile is designed to be used by docker-pipeline.

Glimmer binaries are installed in /opt, as well as ELPH. The image's default command, glimmer.sh, is modeled after run_glimmer.py from YoderLab/MMAP.

Environment Variables

Variable Description Type Required?
CONT_INPUT_CONTIGS_FILE FASTA file containing contigs Input Yes
CONT_OUTPUT_ORFS_FILE Results file, to contain ORFs Output Yes
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dukegcb
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