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Arc Research Institute

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  1. evo2 evo2 Public

    Genome modeling and design across all domains of life

    Jupyter Notebook 3.3k 379

  2. state state Public

    State is a machine learning model that predicts cellular perturbation response across diverse contexts

    Python 479 136

  3. arc-virtual-cell-atlas arc-virtual-cell-atlas Public

    Arc Virtual Cell Atlas

    Jupyter Notebook 471 45

  4. SRAgent SRAgent Public

    LLM agents for working with the SRA and associated bioinformatics databases.

    Python 141 31

  5. xsra xsra Public

    An efficient CLI to extract sequences from the SRA

    Rust 118 10

  6. cell-eval cell-eval Public

    Comprehensive suite for evaluating perturbation prediction models

    Python 113 39

Repositories

Showing 10 of 28 repositories
  • binseq Public

    A high efficiency binary format for sequencing data

    ArcInstitute/binseq’s past year of commit activity
    Rust 84 5 6 0 Updated Dec 20, 2025
  • cell-eval Public

    Comprehensive suite for evaluating perturbation prediction models

    ArcInstitute/cell-eval’s past year of commit activity
    Python 113 MIT 39 5 4 Updated Dec 19, 2025
  • pdex Public

    parallel differential expression for single-cell perturbation sequencing

    ArcInstitute/pdex’s past year of commit activity
    Python 23 MIT 7 8 2 Updated Dec 19, 2025
  • arc-virtual-cell-atlas Public

    Arc Virtual Cell Atlas

    ArcInstitute/arc-virtual-cell-atlas’s past year of commit activity
    Jupyter Notebook 471 45 6 0 Updated Dec 18, 2025
  • Wizards-Staff Public

    Calcium imaging analysis pipeline of outputs from Lizard-Wizard for the Arc Institute.

    ArcInstitute/Wizards-Staff’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Dec 16, 2025
  • Lizard-Wizard Public

    Calcium imaging analysis Nextflow pipeline for the Arc Institute

    ArcInstitute/Lizard-Wizard’s past year of commit activity
    Python 2 MIT 0 0 0 Updated Dec 16, 2025
  • bqtools Public

    A command line utilty for working with BINSEQ files

    ArcInstitute/bqtools’s past year of commit activity
    Rust 32 3 6 0 Updated Dec 16, 2025
  • state Public

    State is a machine learning model that predicts cellular perturbation response across diverse contexts

    ArcInstitute/state’s past year of commit activity
    Python 479 136 45 (1 issue needs help) 21 Updated Dec 16, 2025
  • mmr Public

    A minimap2 implementation with binseq inputs

    ArcInstitute/mmr’s past year of commit activity
    Rust 17 0 0 0 Updated Dec 11, 2025
  • cell-load Public

    pytorch dataloaders for single-cell perturbation data

    ArcInstitute/cell-load’s past year of commit activity
    Python 38 MIT 26 12 4 Updated Dec 10, 2025

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