Introduction
This is the singularity image of the metagenome atlas (v2.8.1). For further information about the pipeline https://metagenome-atlas.readthedocs.io/en/latest/
To make image file from def file using singularity
sudo singularity build atlas-2.8.1.sif atlas-2.8.1.def
Run singularity image
singularity exec atlas-2.8.1.sif atlas --help
Usage: atlas [OPTIONS] COMMAND [ARGS]...
ATLAS - workflows for assembly, annotation, and genomic binning of metagenomic and metatranscriptomic data.
For updates and reporting issues, see: https://github.com/metagenome-atlas/atlas
Options:
--version Show the version and exit.
-h, --help Show this message and exit.
Commands:
download download reference files (need ~50GB)
init prepare configuration file and sample table for atlas run
run run atlas main workflow
For citation
ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data. Kieser, S., Brown, J., Zdobnov, E. M., Trajkovski, M. & McCue, L. A. BMC Bioinformatics 21, 257 (2020). https://doi.org/10.1186/s12859-020-03585-4