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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 384

  2. state state Public

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

    Python 503 142

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

    Arc Virtual Cell Atlas

    Jupyter Notebook 488 48

  4. SRAgent SRAgent Public

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

    Python 143 30

  5. xsra xsra Public

    An efficient CLI to extract sequences from the SRA

    Rust 120 11

  6. cell-eval cell-eval Public

    Comprehensive suite for evaluating perturbation prediction models

    Python 118 42

Repositories

Showing 10 of 31 repositories
  • 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 70 6 0 0 Updated Jan 23, 2026
  • bqtools Public

    A command line utilty for working with BINSEQ files

    ArcInstitute/bqtools’s past year of commit activity
    Rust 35 3 7 1 Updated Jan 23, 2026
  • binseq Public

    A high efficiency binary format for sequencing data

    ArcInstitute/binseq’s past year of commit activity
    Rust 93 5 5 0 Updated Jan 23, 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 503 142 28 (1 issue needs help) 20 Updated Jan 23, 2026
  • cell-load Public

    pytorch dataloaders for single-cell perturbation data

    ArcInstitute/cell-load’s past year of commit activity
    Python 41 MIT 26 12 4 Updated Jan 23, 2026
  • 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 1 0 Updated Jan 23, 2026
  • cyto Public

    A mapper for 10x-flex single cell sequencing reads with fixed abstract geometries

    ArcInstitute/cyto’s past year of commit activity
    Rust 22 BSD-3-Clause 1 17 0 Updated Jan 22, 2026
  • cell-eval Public

    Comprehensive suite for evaluating perturbation prediction models

    ArcInstitute/cell-eval’s past year of commit activity
    Python 118 MIT 42 3 6 Updated Jan 16, 2026
  • pycyto Public

    python utilities for cyto

    ArcInstitute/pycyto’s past year of commit activity
    Python 0 BSD-3-Clause 0 3 0 Updated Jan 15, 2026
  • pdex Public

    parallel differential expression for single-cell perturbation sequencing

    ArcInstitute/pdex’s past year of commit activity
    Python 24 MIT 7 8 2 Updated Jan 6, 2026

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