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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 383

  2. state state Public

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

    Python 496 141

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

    Arc Virtual Cell Atlas

    Jupyter Notebook 481 47

  4. SRAgent SRAgent Public

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

    Python 142 30

  5. xsra xsra Public

    An efficient CLI to extract sequences from the SRA

    Rust 119 10

  6. cell-eval cell-eval Public

    Comprehensive suite for evaluating perturbation prediction models

    Python 117 42

Repositories

Showing 10 of 29 repositories
  • cell-eval Public

    Comprehensive suite for evaluating perturbation prediction models

    ArcInstitute/cell-eval’s past year of commit activity
    Python 117 MIT 42 3 6 Updated Jan 17, 2026
  • binseq Public

    A high efficiency binary format for sequencing data

    ArcInstitute/binseq’s past year of commit activity
    Rust 90 5 6 0 Updated Jan 16, 2026
  • stack Public

    Stack is a single-cell foundation model that enables in-context learning at inference time.

    ArcInstitute/stack’s past year of commit activity
    Jupyter Notebook 62 4 1 0 Updated Jan 10, 2026
  • bqtools Public

    A command line utilty for working with BINSEQ files

    ArcInstitute/bqtools’s past year of commit activity
    Rust 33 3 7 0 Updated Jan 7, 2026
  • 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 Jan 7, 2026
  • 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 496 141 47 (1 issue needs help) 20 Updated Jan 6, 2026
  • arc-virtual-cell-atlas Public

    Arc Virtual Cell Atlas

    ArcInstitute/arc-virtual-cell-atlas’s past year of commit activity
    Jupyter Notebook 481 47 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
  • 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

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