Fathom is a platform that makes sample composition, pathogen detection, 16S / 18S analysis, and strain typing simple, scalable, and affordable.
Most tools align your reads to one reference, then the next, then the next — a slow chain of sequential passes. Fathom's sample composition module is different: it compares against all references simultaneously, delivering greater accuracy and immense speed in a single pass.
Each sample is broken down across seven categories: human, human transcript, bacteria, virus, fungi, 16S, and 18S.
Fathom resolves the organisms in your sample and types them to the strain — distinguishing SARS-CoV-2 lineages and influenza strains such as type A (H1N1) — with per-gene coverage you can drill into.
Its detection methods draw on the best bioinformatics methods of the last 20 years, combined for both speed and accuracy.
Run analyses through the web interface, or integrate Fathom directly into your pipeline with the API.
Upload reads, choose a reference, and view interactive composition and pathogen results — no setup, no command line.
Submit samples and pull results programmatically. Drop Fathom straight into your existing sequencing workflow.
Fathom does not save your sequencing data. We respect your privacy and don't retain your data to monetize it — unlike pretty much every other platform. Fathom takes security seriously and is secure by design, built on industry-standard patterns.