Atlas is a easy to use metagenomic pipeline

Three commands to start analysing your metagenome data:

    mamba install -c bioconda -c conda-forge metagenome-atlas
    atlas init --db-dir databases path/to/fastq/files
    atlas run

All databases and dependencies are installed on the fly in the directory db-dir. You want to run these three commands on the example_data on the GitHub repo. If you have more time, then we recommend you configure atlas according to your needs. - check the samples.tsv - edit the config.yaml - run atlas on any cluster system For more details see documentation.