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@dib-lab

The Lab for Data Intensive Biology

Previously "Genomics, Evolution, and Development Lab" @ Michigan State University
README.md

The Lab for Data Intensive Biology at UC Davis

See http://ivory.idyll.org/lab/

In addition to the pinned repositories within dib-lab, we also work on and help maintain the following software:

sourmash, for rapid large-scale sequence search.

spacegraphcats, for querying large annoying metagenome assembly graphs.

Pinned Loading

  1. khmer khmer Public

    In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

    Python 792 297

  2. charcoal charcoal Public

    Remove contaminated contigs from genomes using k-mers and taxonomies.

    Python 60 2

  3. genome-grist genome-grist Public

    map Illumina metagenomes to genomes!

    Jupyter Notebook 38 6

Repositories

Showing 10 of 182 repositories
  • screed Public

    a simple read-only sequence database, designed for short reads

    dib-lab/screed's past year of commit activity
    Python 66 32 10 5 Updated Apr 25, 2026
  • chill-filter Public

    Sample screening software for shotgun sequencing data, using sourmash

    dib-lab/chill-filter's past year of commit activity
    Python 3 AGPL-3.0 0 7 2 Updated Apr 1, 2026
  • genome-grist Public

    map Illumina metagenomes to genomes!

    dib-lab/genome-grist's past year of commit activity
    Jupyter Notebook 38 6 117 (1 issue needs help) 10 Updated Jan 22, 2026
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