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@BirolLab

Birol Lab

Bioinformatics Technology Lab

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  1. ntRoot ntRoot Public

    🌳 Scalable ancestry from genomic data

    Python 12

  2. ntSynt ntSynt Public

    Detecting multi-genome synteny using minimizer graph mapping

    Python 103 2

  3. goldrush goldrush Public

    Linear-time de novo Long Read Assembler

    C++ 41 2

  4. ntEdit ntEdit Public

    ✏️ Genome assembly polishing & SNV detection

    C++ 73 10

  5. AMPlify AMPlify Public

    Attentive deep learning model for antimicrobial peptide prediction

    Python 56 13

  6. NanoSim NanoSim Public

    Nanopore sequence read simulator

    Python 292 64

Repositories

Showing 10 of 92 repositories
  • LINKS Public

    ⛓ Long Interval Nucleotide K-mer Scaffolder

    BirolLab/LINKS’s past year of commit activity
    Perl 73 GPL-3.0 16 0 0 Updated Mar 13, 2026
  • RNA-Bloom Public

    🌺 reference-free transcriptome assembly for short and long reads

    BirolLab/RNA-Bloom’s past year of commit activity
    Java 108 9 9 1 Updated Mar 13, 2026
  • rAMPage Public

    rAMPage: Rapid AMP Annotation and Gene Estimation

    BirolLab/rAMPage’s past year of commit activity
    Shell 7 GPL-3.0 1 0 0 Updated Mar 13, 2026
  • ntHash Public

    Fast hash function for DNA/RNA sequences

    BirolLab/ntHash’s past year of commit activity
    C++ 106 MIT 15 2 3 Updated Mar 13, 2026
  • ntCard Public

    Estimating k-mer coverage histogram of genomics data

    BirolLab/ntCard’s past year of commit activity
    C++ 77 MIT 9 9 2 Updated Mar 13, 2026
  • ntEmbd Public

    Deep learning embedding for nucleotide sequences

    BirolLab/ntEmbd’s past year of commit activity
    Python 20 3 3 0 Updated Mar 13, 2026
  • aakomp Public

    Draft genome completeness assessment using k-mer hash based approach

    BirolLab/aakomp’s past year of commit activity
    C++ 2 GPL-3.0 0 0 0 Updated Mar 13, 2026
  • NanoSim Public

    Nanopore sequence read simulator

    BirolLab/NanoSim’s past year of commit activity
    Python 292 64 35 (6 issues need help) 2 Updated Mar 12, 2026
  • AMPSeek Public

    Anti-microbial property, protein structure and toxicity detection from peptide sequences

    BirolLab/AMPSeek’s past year of commit activity
    Python 1 0 0 0 Updated Mar 12, 2026
  • abyss Public

    🔬 Assemble large genomes using short reads

    BirolLab/abyss’s past year of commit activity
    C++ 328 111 5 0 Updated Mar 11, 2026
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People

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