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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 104 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 293 64

Repositories

Showing 10 of 92 repositories
  • physlr Public

    ⛓️ Construct a Physical Map from Linked Reads

    BirolLab/physlr’s past year of commit activity
    Python 18 GPL-3.0 7 5 0 Updated Mar 18, 2026
  • btllib Public

    📚Bioinformatics Technology Lab common code library

    BirolLab/btllib’s past year of commit activity
    C++ 28 7 26 (1 issue needs help) 9 Updated Mar 17, 2026
  • pavfinder_transcriptome Public
    BirolLab/pavfinder_transcriptome’s past year of commit activity
    Python 0 0 1 1 Updated Mar 17, 2026
  • pavfinder Public

    🔍 Post Assembly Variants Finder

    BirolLab/pavfinder’s past year of commit activity
    Python 18 5 1 1 Updated Mar 17, 2026
  • ntSynt-viz Public

    Multi-genome synteny block visualization tool

    BirolLab/ntSynt-viz’s past year of commit activity
    Python 55 GPL-3.0 4 1 0 Updated Mar 17, 2026
  • AMPd-Up Public

    De novo antimicrobial peptide sequence generation with recurrent neural networks

    BirolLab/AMPd-Up’s past year of commit activity
    Python 4 0 1 0 Updated Mar 17, 2026
  • AMPlify Public

    Attentive deep learning model for antimicrobial peptide prediction

    BirolLab/AMPlify’s past year of commit activity
    Python 56 13 4 (1 issue needs help) 0 Updated Mar 17, 2026
  • 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
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