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@linnarsson-lab

Linnarsson Lab

Software developed by members of the Linnarsson lab at Karolinska Institutet

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  1. loompy loompy Public

    Python implementation of the Loom file format - http://loompy.org

    Python 150 36

  2. cytograph2 cytograph2 Public

    Python 14

  3. BoneFight BoneFight Public

    Python 9 2

Repositories

Showing 10 of 53 repositories
  • developing-human-brain Public
    linnarsson-lab/developing-human-brain's past year of commit activity
    Jupyter Notebook 45 BSD-2-Clause 1 13 0 Updated Sep 10, 2026
  • human-meninges-development Public

    Supplementary code and data to our study of the developing human meninges by Vinsland et al. (manuscript in preparation).

    linnarsson-lab/human-meninges-development's past year of commit activity
    Jupyter Notebook 4 BSD-2-Clause 0 0 0 Updated Aug 4, 2026
  • fetal_brain_multiomics Public

    Supplementary files and notebooks to recreate figures.

    linnarsson-lab/fetal_brain_multiomics's past year of commit activity
    HTML 23 BSD-2-Clause 3 0 1 Updated Aug 4, 2026
  • OTTR Public

    Organotypic Timelapse recording with Transcriptomic Readout (OTTR) links cell identity to cell behaviour in human tissues

    linnarsson-lab/OTTR's past year of commit activity
    Jupyter Notebook 1 BSD-2-Clause 0 0 0 Updated Jun 16, 2026
  • glioblastoma_wound_response Public

    Repository for Glioblastoma scRNA-seq and EEL-FISH data and code

    linnarsson-lab/glioblastoma_wound_response's past year of commit activity
    Jupyter Notebook 5 0 1 0 Updated Jun 16, 2026
  • development-mouse Public

    Analysis pipeline for the mouse developing nervous system project

    linnarsson-lab/development-mouse's past year of commit activity
    Python 2 0 0 0 Updated Jun 15, 2026
  • FISHscale Public

    Spatial analysis of FISH data

    linnarsson-lab/FISHscale's past year of commit activity
    Jupyter Notebook 32 9 6 0 Updated Jun 5, 2026
  • adolescent-mouse Public

    Analysis pipeline for the adolescent mouse nervous system project

    linnarsson-lab/adolescent-mouse's past year of commit activity
    Jupyter Notebook 25 5 3 0 Updated Jun 5, 2026
  • adult-human-brain Public

    Cytograph version used for adult human-brain analysis

    linnarsson-lab/adult-human-brain's past year of commit activity
    Jupyter Notebook 102 BSD-2-Clause 21 11 0 Updated Jun 5, 2026
  • FISHspace Public
    linnarsson-lab/FISHspace's past year of commit activity
    Python 0 0 0 0 Updated Nov 7, 2025
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