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@refresh-bio

REFRESH Bioinformatics Group

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  1. KMCKMCPublic

    Fast and frugal disk based k-mer counter

    C++ 294 76

  2. FAMSAFAMSAPublic

    Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)

    C++ 158 28

  3. colordcolordPublic

    A versatile compressor of third generation sequencing reads.

    C++ 51 14

  4. kmer-dbkmer-dbPublic

    Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).

    C++ 91 18

  5. agcagcPublic

    Assembled Genomes Compressor

    C++ 167 14

  6. PHISTPHISTPublic

    Phage-Host Interaction Search Tool

    C++ 27 2

Repositories

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Showing 10 of 29 repositories
  • KMC Public

    Fast and frugal disk based k-mer counter

    refresh-bio/KMC’s past year of commit activity
    C++ 294 76 96 5 UpdatedJul 8, 2025
  • refresh-bio/microbialSPLASH’s past year of commit activity
    Python0MIT0 0 0 UpdatedJun 13, 2025
  • SPLASH Public
    refresh-bio/SPLASH’s past year of commit activity
    C++ 79GPL-3.0 12 23 2 UpdatedJun 10, 2025
  • clusty Public
    refresh-bio/clusty’s past year of commit activity
    C++ 12GPL-3.0 2 3 0 UpdatedMay 23, 2025
  • vclust Public

    Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes

    refresh-bio/vclust’s past year of commit activity
    Python 87GPL-3.0 4 5 0 UpdatedMay 23, 2025
  • kmer-db Public

    Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).

    refresh-bio/kmer-db’s past year of commit activity
    C++ 91GPL-3.0 18 12 0 UpdatedMay 20, 2025
  • bkc Public
    refresh-bio/bkc’s past year of commit activity
    C++00 1 0 UpdatedMay 8, 2025
  • ref-utils Public
    refresh-bio/ref-utils’s past year of commit activity
    C++0GPL-3.00 0 0 UpdatedDec 5, 2024
  • agc Public

    Assembled Genomes Compressor

    refresh-bio/agc’s past year of commit activity
    C++ 167MIT 14 6 2 UpdatedNov 25, 2024
  • LZ-ANI Public

    Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes

    refresh-bio/LZ-ANI’s past year of commit activity
    C++ 10GPL-3.0 1 0 0 UpdatedNov 25, 2024
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