Abstract
We introduce branchwater, a flexible and fast petabase-scale search for the 767,000 public metagenomes presently in the NCBI Sequence Read Archive. Our search is based on the FracMinHash k-mer sketching technique and can search all public metagenomes with 1000 query genomes in approximately 36 hours using 50 GB of RAM and 32 threads. Branchwater is a Rust-based multithreading front-end built on top of the sourmash library. We provide biological use cases, examine performance, and discuss design and performance considerations.
Competing Interest Statement
The authors have declared no competing interest.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
Posted November 03, 2022.
