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@marbl

MarBL

Maryland Bioinformatics Labs

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  1. CHM13 CHM13 Public

    The complete sequence of a human genome

    1.1k 104

  2. canu canu Public

    A single molecule sequence assembler for genomes large and small.

    C++ 709 178

  3. Krona Krona Public

    Interactively explore metagenomes and more from a web browser.

    JavaScript 504 109

  4. Mash Mash Public

    Fast genome and metagenome distance estimation using MinHash

    C++ 451 95

  5. verkko verkko Public

    Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

    Python 417 34

  6. merqury merqury Public

    k-mer based assembly evaluation

    Shell 354 25

Repositories

Showing 10 of 46 repositories
  • MetagenomeScope Public

    Visualization tool for (meta)genome assembly graphs

    marbl/MetagenomeScope's past year of commit activity
    Python 50 GPL-3.0 10 163 0 Updated Sep 9, 2026
  • GQC Public

    Python package for comparing genome assemblies and read data to the diploid Q100 benchmark

    marbl/GQC's past year of commit activity
    Python 19 3 1 0 Updated Sep 3, 2026
  • parsnp Public

    Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surroundin…

    marbl/parsnp's past year of commit activity
    C++ 157 29 31 0 Updated Sep 2, 2026
  • harvest-tools Public
    marbl/harvest-tools's past year of commit activity
    C++ 10 7 19 0 Updated Sep 2, 2026
  • gis-bulk-assembly Public

    Utility scripts to download/process/assemble/qc large collection of samples from AWS/FTP

    marbl/gis-bulk-assembly's past year of commit activity
    Perl 1 0 0 0 Updated Sep 1, 2026
  • Pooch Public

    POOCH is a Snakemake-based pipeline for assigning chromosome labels and determining the parent of origin (maternal or paternal) of near-complete genome assemblies.

    marbl/Pooch's past year of commit activity
    0 MIT 0 0 0 Updated Aug 28, 2026
  • verkko Public

    Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

    marbl/verkko's past year of commit activity
    Python 417 34 19 0 Updated Aug 25, 2026
  • verkko-fillet Public

    Post-verkko graph and assembly curation in Python.

    marbl/verkko-fillet's past year of commit activity
    Jupyter Notebook 33 MIT 1 6 0 Updated Aug 20, 2026
  • MetaCompass Public

    MetaCompass: Reference-guided Assembly of Metagenomes

    marbl/MetaCompass's past year of commit activity
    Python 45 12 13 0 Updated Aug 19, 2026
  • TTT Public
    marbl/TTT's past year of commit activity
    Python 28 0 3 0 Updated Aug 18, 2026
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