Sample Comparison Workflow

The sample comparison workflow helps perform rapid k-mer-based ordination analyses of many samples to provide sample groupings and identify potential outliers.

Operating at the level of k-mers (representations of the reads), the comparison step is taking the reads that were not fingerprinted by the assembler and seeing if they match genomes of other organisms.

The tool used for comparison is sourmash.

More information:

• Comparison Walkthrough
• Comparison Snakemake Rules
• workflows/comparison/ directory in the repository