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@acg-team

Applied Computational Genomics Team

Computational Genomics tools from Maria Anisimova and collaborators

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  1. tral tral Public

    Tandem Repeat Annotation Library

    Python 24 6

  2. ProGraphMSA ProGraphMSA Public

    ProGraphMSA is a state-of-the-art multiple sequence alignment tool which produces phylogenetically sensible gap patterns while maintaining robustness by allowing alternative splicings and errors in…

    C++ 9 4

  3. bpp-arpip bpp-arpip Public

    ARPIP: Ancestral sequence Reconstruction under PIP

    C++ 9 1

  4. ProPIP ProPIP Public

    C++ 6 3

  5. webSTR-API webSTR-API Public

    WebSTR-API: programmatic access to WebSTR, database of Human genome-wide variation in Short Tandem Repeats (STRs)

    Python 6 4

  6. rust-phylo rust-phylo Public

    Phylo library in Rust

    Rust 6 2

Repositories

Showing 10 of 44 repositories
  • rust-phylo Public

    Phylo library in Rust

    acg-team/rust-phylo’s past year of commit activity
    Rust 6 MIT 2 7 3 Updated Feb 26, 2025
  • JATI Public

    JATI: Joint Alignment and Tree Inference

    acg-team/JATI’s past year of commit activity
    Rust 1 0 0 1 Updated Feb 23, 2025
  • Bioinfo4B Public
    acg-team/Bioinfo4B’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Feb 19, 2025
  • acg-team/tmb_crc_scripts’s past year of commit activity
    0 0 0 0 Updated Feb 18, 2025
  • mutation-tme-crc Public

    Machine learning analysis of genetic mutations (STRs, SNPs, indels) and tumor microenvironment (TME) features in colorectal cancer using TCGA data.

    acg-team/mutation-tme-crc’s past year of commit activity
    0 0 0 0 Updated Feb 11, 2025
  • crc_ml_genotype Public

    Machine learning analysis of genotype-phenotype associations in colorectal cancer using tumor images and mutation data from TCGA.

    acg-team/crc_ml_genotype’s past year of commit activity
    0 0 0 0 Updated Feb 11, 2025
  • images_tcga Public
    acg-team/images_tcga’s past year of commit activity
    0 0 0 0 Updated Feb 11, 2025
  • ConSTRain Public

    A short tandem repeat variant caller that incorporates copy number information

    acg-team/ConSTRain’s past year of commit activity
    Rust 0 GPL-3.0 0 0 0 Updated Jan 13, 2025
  • ConSTRain-analyses Public

    Genotyping of STR loci that are located in copy number alterations or polyploid organisms

    acg-team/ConSTRain-analyses’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jan 7, 2025
  • acg-team/multicancer_STR’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Dec 18, 2024

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