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GeezerVison is showing github.com — Yosef Lab

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  1. VISION VISION Public

    Signature Analysis and Visualization for Single-Cell RNA-seq

    R 186 33

  2. Cassiopeia Cassiopeia Public

    A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction

    Python 101 32

  3. Compass Compass Public

    In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes

    Python 128 33

  4. Hotspot Hotspot Public

    Python 171 19

  5. epitome epitome Public

    Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibility

    Python 10 5

  6. popV popV Public

    Python 104 20

Repositories

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Showing 10 of 77 repositories
  • cPHS Public

    Code and data for “Can you trust your reconstructed lineage tree? A homoplasy-based approach for irreversible evolution” (Zilber et al.)

    YosefLab/cPHS's past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 12, 2026
  • scLAMBDA Public

    Agentic toolkit for biological data analysis

    YosefLab/scLAMBDA's past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 11, 2026
  • scvi-hub-models Public

    Reproducibility workflows for pre-trained scvi-tools models on Hugging Face

    YosefLab/scvi-hub-models's past year of commit activity
    Jupyter Notebook 3 MIT 1 1 0 Updated Nov 10, 2026
  • scvi-tools-mcp Public

    MCP (Model Context Protocol) server for deep probabilistic analysis of single-cell omics data using scvi-tools

    YosefLab/scvi-tools-mcp's past year of commit activity
    Python 2 BSD-3-Clause 0 0 0 Updated Nov 10, 2026
  • scib-metrics Public

    Accelerated, Python-only, single-cell integration benchmarking metrics

    YosefLab/scib-metrics's past year of commit activity
    Python 98 BSD-3-Clause 23 2 4 Updated Nov 10, 2026
  • scviva-tools-website Public

    website for scVIVA-Tools

    YosefLab/scviva-tools-website's past year of commit activity
    JavaScript 1 BSD-3-Clause 0 0 0 Updated Nov 10, 2026
  • scviva-tools Public

    scVIVA-Tools: A unified toolkit for spatial transcriptomics analysis

    YosefLab/scviva-tools's past year of commit activity
    Python 16 BSD-3-Clause 3 0 5 Updated Nov 10, 2026
  • treedata Public

    anndata with trees

    YosefLab/treedata's past year of commit activity
    Python 9 BSD-3-Clause 5 0 2 Updated Nov 9, 2026
  • destvi_utils Public

    Utilities for downstream analysis of destVI

    YosefLab/destvi_utils's past year of commit activity
    Python 1 BSD-3-Clause 0 1 1 Updated Nov 9, 2026
  • popV Public
    YosefLab/popV's past year of commit activity
    Python 104 MIT 20 7 2 Updated Nov 9, 2026
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