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@YosefLab

Yosef Lab

Department of Systems Immunology, Weizmann Institute of Science

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  1. VISION VISION Public

    Signature Analysis and Visualization for Single-Cell RNA-seq

    R 172 33

  2. Cassiopeia Cassiopeia Public

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

    Python 95 28

  3. Compass Compass Public

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

    Python 117 32

  4. Hotspot Hotspot Public

    Python 129 16

  5. epitome epitome Public

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

    Python 10 4

  6. popV popV Public

    Python 83 18

Repositories

Showing 10 of 68 repositories
  • Cassiopeia Public

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

    YosefLab/Cassiopeia’s past year of commit activity
    Python 95 MIT 28 24 (3 issues need help) 14 Updated Oct 28, 2025
  • treedata Public

    anndata with trees

    YosefLab/treedata’s past year of commit activity
    Python 7 BSD-3-Clause 3 0 0 Updated Oct 28, 2025
  • scib-metrics Public

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

    YosefLab/scib-metrics’s past year of commit activity
    Python 74 BSD-3-Clause 18 7 2 Updated Oct 28, 2025
  • popV Public
    YosefLab/popV’s past year of commit activity
    Python 83 MIT 18 2 2 Updated Oct 27, 2025
  • velovi Public
    YosefLab/velovi’s past year of commit activity
    Python 40 BSD-3-Clause 7 8 2 Updated Oct 27, 2025
  • Harreman Public

    Metabolic cell-cell communication inference in spatial transcriptomics.

    YosefLab/Harreman’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Oct 27, 2025
  • CellRangerIDE Public
    YosefLab/CellRangerIDE’s past year of commit activity
    Python 0 0 0 0 Updated Oct 23, 2025
  • Compass Public

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

    YosefLab/Compass’s past year of commit activity
    Python 117 BSD-3-Clause 32 52 2 Updated Oct 22, 2025
  • Harreman-reproducibility Public

    This package contains the code to reproduce the figures and analyses performed in the Harreman manuscript.

    YosefLab/Harreman-reproducibility’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 21, 2025
  • mrvi_archive Public

    Multi-resolution Variational Inference

    YosefLab/mrvi_archive’s past year of commit activity
    Python 22 BSD-3-Clause 8 2 1 Updated Oct 13, 2025
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