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@saeyslab

Saeys Lab

Data Mining and Modelling for Biomedicine, a VIB-UGent research unit

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  1. nichenetr nichenetr Public

    NicheNet: predict active ligand-target links between interacting cells

    R 538 125

  2. FlowSOM FlowSOM Public

    Using self-organizing maps for visualization and interpretation of cytometry data

    R 27 8

  3. multinichenetr multinichenetr Public

    MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

    HTML 146 17

  4. PeacoQC PeacoQC Public

    Peak-based selection of high quality cytometry data

    R 16 9

  5. spotless-benchmark spotless-benchmark Public

    A repository for benchmarking spatial deconvolution and mapping tools

    R 33 4

  6. CytoNorm CytoNorm Public

    R library to normalize cytometry data

    R 36 11

Repositories

Showing 10 of 61 repositories
  • harpy Public

    Single-cell spatial proteomics analysis that makes you happy!

    saeyslab/harpy’s past year of commit activity
    Python 28 5 12 2 Updated May 23, 2025
  • nichenetr Public

    NicheNet: predict active ligand-target links between interacting cells

    saeyslab/nichenetr’s past year of commit activity
    R 538 125 22 2 Updated May 23, 2025
  • ViVAE Public

    Single-cell dimensionality reduction toolkit

    saeyslab/ViVAE’s past year of commit activity
    Jupyter Notebook 6 Apache-2.0 1 0 0 Updated May 21, 2025
  • FlowSOM_Python Public

    The complete FlowSOM package known from R, now available in Python!

    saeyslab/FlowSOM_Python’s past year of commit activity
    Python 20 GPL-3.0 5 2 1 Updated May 19, 2025
  • SingleBench Public

    Evaluation framework for exploratory modelling in cytometry

    saeyslab/SingleBench’s past year of commit activity
    R 0 MIT 0 0 0 Updated May 16, 2025
  • PeacoQC Public

    Peak-based selection of high quality cytometry data

    saeyslab/PeacoQC’s past year of commit activity
    R 16 9 3 0 Updated May 13, 2025
  • spotless-benchmark Public

    A repository for benchmarking spatial deconvolution and mapping tools

    saeyslab/spotless-benchmark’s past year of commit activity
    R 33 MIT 4 0 0 Updated May 13, 2025
  • ViScore Public

    Single-cell dimensionality reduction evaluation and benchmarking toolkit

    saeyslab/ViScore’s past year of commit activity
    Python 6 Apache-2.0 0 1 0 Updated May 6, 2025
  • napari-sparrow Public

    https://sparrow-pipeline.readthedocs.io/en/latest/

    saeyslab/napari-sparrow’s past year of commit activity
    Python 27 0 13 0 Updated May 6, 2025
  • iidx Public

    Interactive and interpretable differential expression modelling in cytometry

    saeyslab/iidx’s past year of commit activity
    R 0 Apache-2.0 0 0 0 Updated Apr 26, 2025
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