Repositories list

• branchwater

  Public
  Searching large collections of sequencing data with genome-scale queries

  metagenomicssourmash

  HTML

  •

  Other

  •3•16•33•10•Updated Feb 5, 2026Feb 5, 2026

• sourmash

  Public
  Quickly search, compare, and analyze genomic and metagenomic data sets.

  pythonrustbioinformatics+ 9minhashsketchingkmerhacktoberfesttaxonomic-classificationsourmashtaxonomic-profiling+ 2

  Python

  •

  Other

  •87•538•768•67•Updated Feb 3, 2026Feb 3, 2026

• sourmash_plugin_branchwater

  Public
  fast, multithreaded sourmash operations: search, compare, and gather.

  sourmash

  Python

  •

  GNU Affero General Public License v3.0

  •5•25•121•21•Updated Feb 2, 2026Feb 2, 2026

• sourmash_plugin_betterplot

  Public
  Improved plotting/viz and cluster examination for sourmash

  sourmash

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•5•28•2•Updated Jan 27, 2026Jan 27, 2026

• wort

  Public
  A database for signatures of public genomic sources

  webservicebioinformaticsminhash+ 2bioinformatics-databasessourmash

  Python

  •

  Other

  •3•18•25•4•Updated Jan 1, 2026Jan 1, 2026

• 2024-ictv-challenge-sourmash

  Public
  Python

  •0•0•1•0•Updated Dec 7, 2025Dec 7, 2025

• sourmash_plugin_tables

  Public
  Tables is a python-based sourmash plugin to convert the standard output files from base sourmash into an OTU format. See README for more information.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•2•0•Updated Dec 2, 2025Dec 2, 2025

• sourmash_plugin_directsketch

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1•4•26•14•Updated Nov 24, 2025Nov 24, 2025

• 2025-sourmash-databases-doc-template

  Public
  Template structure for building new sourmash database doc files

  sourmash

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•1•0•Updated Aug 5, 2025Aug 5, 2025

• 2025-validate-sourmash-tax-formats

  Public
  Validation workflow for outputs of `sourmash tax`

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Jul 31, 2025Jul 31, 2025

• sourmash_plugin_containment_search

  Public archive
  An improved `search --containment` for sourmash

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•2•6•0•Updated Jun 15, 2025Jun 15, 2025

• sourmash_utils

  Public
  Python utilities for sourmash plugins and scripts

  Python

  •1•0•2•2•Updated May 20, 2025May 20, 2025

• 2025-ictv-vmr-database

  Public
  Python

  •0•0•0•0•Updated May 19, 2025May 19, 2025

• 2024-benchmark-gather

  Public
  Benchmarking code for various gather implementations

  Jupyter Notebook

  •0•0•0•0•Updated Mar 9, 2025Mar 9, 2025

• 2025-sourmash-ncbi-viral-databases

  Public
  Build infrastructure for creating sourmash databases from NCBI for all viruses

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Feb 25, 2025Feb 25, 2025

• 2025-sourmash-eukaryotic-databases

  Public
  Build infrastructure for creating sourmash databases from NCBI for all eukaryotes

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Jan 22, 2025Jan 22, 2025

• sourmash_plugin_template

  Public template
  template for building sourmash plugins

  sourmash

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•2•2•0•Updated Jan 19, 2025Jan 19, 2025

• 2024-sketch-animal-genomes

  Public
  Sketch human, mouse, cow, chick, and other animal genomes.

  Python

  •0•0•0•0•Updated Dec 14, 2024Dec 14, 2024

• sourmash.bio

  Public
  Dockerfile

  •0•0•0•0•Updated Oct 6, 2024Oct 6, 2024

• sourmash_plugin_hashannot

  Public
  sourmash utilities for annotating hashes with genomic information

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•1•Updated Aug 30, 2024Aug 30, 2024

• database-releases

  Public
  Build infrastructure for official sourmash database releases

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1•1•2•3•Updated Aug 14, 2024Aug 14, 2024

• sourmash_plugin_venn

  Public archive
  venn diagrams for sourmash sketches! (DEPRECATED)

  sourmash

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Aug 11, 2024Aug 11, 2024

• 2024-benchmark-branchwater-plugin

  Public
  Some simple benchmarking code for sourmash_plugin_branchwater

  Shell

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Feb 18, 2024Feb 18, 2024

• mastiff

  Public archive
  Rust

  •

  Other

  •0•16•0•0•Updated Jan 21, 2024Jan 21, 2024

• .github

  Public
  0•0•1•0•Updated Jan 21, 2024Jan 21, 2024

• branchwater-old

  Public archive
  Code and workflows for large-scale genomic search of e.g. the Sequence Read Archive

  BSD 3-Clause "New" or "Revised" License

  •0•8•0•1•Updated Jan 21, 2024Jan 21, 2024

• sourmashconsumr

  Public
  Working with the outputs of sourmash in R

  Standard ML

  •

  Other

  •4•0•0•0•Updated Nov 7, 2023Nov 7, 2023

• 2023-branchwater-validate

  Public
  Validation and testing for sourmash branchwater

  sourmash

  Jupyter Notebook

  •0•1•0•0•Updated Sep 1, 2023Sep 1, 2023

• sra_search

  Public
  Rust

  •

  GNU Affero General Public License v3.0

  •0•0•2•2•Updated Aug 28, 2023Aug 28, 2023

• sourmash_plugin_randsampling

  Public
  kmers extraction based on weighted-random-sampling

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1•1•1•0•Updated Aug 12, 2023Aug 12, 2023