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Lotfollahi-lab

Popular repositories Loading

  1. nichecompass nichecompass Public

    End-to-end analysis of spatial multi-omics data

    Python 131 21

  2. terra terra Public

    Spatial transcriptomics foundation model based on Graph Transformer and JEPA

    Python 74 2

  3. Perturbgen Perturbgen Public

    Python 28 8

  4. mintflow mintflow Public template

    Generation of disentangled microenvironment-induced and intrinsic gene expression vectors from spatial transcriptomics data

    Python 28 5

  5. tripso tripso Public

    Python 26 1

  6. CellDISECT CellDISECT Public

    Fairness in single-cell data

    Python 21 2

Repositories

Showing 10 of 21 repositories
  • Perturbgen Public
    Lotfollahi-lab/Perturbgen's past year of commit activity
    Python 28 MIT 8 3 2 Updated Oct 16, 2026
  • tripso Public
    Lotfollahi-lab/tripso's past year of commit activity
    Python 26 MIT 1 5 10 Updated Oct 12, 2026
  • squint-reproducibility Public

    Reproducible analyses for SQUINT

    Lotfollahi-lab/squint-reproducibility's past year of commit activity
    Jupyter Notebook 1 MIT 0 0 0 Updated Oct 12, 2026
  • squint Public

    Discrete tokenization for spatial transcriptomics tissue sections

    Lotfollahi-lab/squint's past year of commit activity
    Python 3 MIT 1 1 0 Updated Oct 12, 2026
  • g2t-reproducibility Public

    Graph generation for single-cell RNA sequencing data

    Lotfollahi-lab/g2t-reproducibility's past year of commit activity
    Jupyter Notebook 0 BSD-3-Clause 1 0 0 Updated Oct 9, 2026
  • g2t Public

    Graph generation for scRNA-seq data

    Lotfollahi-lab/g2t's past year of commit activity
    Python 1 BSD-3-Clause 0 0 0 Updated Oct 9, 2026
  • nichecompass-reproducibility Public

    Reproducible analyses for the NicheCompass manuscript

    Lotfollahi-lab/nichecompass-reproducibility's past year of commit activity
    Jupyter Notebook 15 BSD-3-Clause 3 1 0 Updated Oct 5, 2026
  • nichecompass Public

    End-to-end analysis of spatial multi-omics data

    Lotfollahi-lab/nichecompass's past year of commit activity
    Python 131 BSD-3-Clause 21 10 0 Updated Oct 4, 2026
  • mintflow-reproducibility Public

    Reproducible analyses for the MintFlow manuscript

    Lotfollahi-lab/mintflow-reproducibility's past year of commit activity
    Jupyter Notebook 7 BSD-3-Clause 1 0 0 Updated Oct 2, 2026
  • squint-extended Public Forked from Lotfollahi-lab/squint

    Discrete tokenization for spatial transcriptomics tissue sections

    Lotfollahi-lab/squint-extended's past year of commit activity
    Python 0 MIT 1 0 0 Updated Oct 1, 2026
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