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@secrierlab

Secrier Lab @ UCL Genetics Institute

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  1. SpottedPy SpottedPy Public

    Hotspot cluster distance analysis in spatial transcriptomic data

    Jupyter Notebook 33

  2. HistoMIL HistoMIL Public

    A Python package for handling histopathology whole-slide images using multiple instance learning (MIL) techniques.

    Python 29 8

  3. EMT EMT Public

    This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.

    R 13 3

  4. EnrichMap EnrichMap Public

    EnrichMap: Spatially-informed enrichment analysis for functional interpretation of spatial transcriptomics.

    Python 12 3

  5. tumourMassDormancy tumourMassDormancy Public

    This repository contains the code developed for the analysis of tumour mass dormancy, immunological and angiogenic dormancy across cancers from the Cancer Genome Atlas (TCGA).

    R 5 1

  6. CancerG0Arrest CancerG0Arrest Public

    Evaluation of cell cycle arrest from transcriptomics data.

    R 4 1

Repositories

Showing 10 of 19 repositories
  • secrierlab.github.io Public

    The Secrier lab website.

    secrierlab/secrierlab.github.io’s past year of commit activity
    HTML 0 0 0 0 Updated Dec 20, 2025
  • EnrichMap Public

    EnrichMap: Spatially-informed enrichment analysis for functional interpretation of spatial transcriptomics.

    secrierlab/EnrichMap’s past year of commit activity
    Python 12 GPL-3.0 3 1 0 Updated Dec 11, 2025
  • SPiCe Public
    secrierlab/SPiCe’s past year of commit activity
    Jupyter Notebook 0 GPL-3.0 0 0 0 Updated Aug 31, 2025
  • Metastatic-melanoma-anti-PD1 Public

    Analysis of metastatic melanoma anti-PD1 dataset from Li et al

    secrierlab/Metastatic-melanoma-anti-PD1’s past year of commit activity
    R 0 0 0 0 Updated Aug 11, 2025
  • enrichmap-reproducibility Public

    Reproducibility repository for EnrichMap preprint.

    secrierlab/enrichmap-reproducibility’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jun 2, 2025
  • G0-FM Public

    A foundation model to classify G0, slow and fast cycling states in single cell RNA-seq cancer data. This model has currently been trained on breast cancer only.

    secrierlab/G0-FM’s past year of commit activity
    Jupyter Notebook 1 GPL-3.0 0 0 0 Updated Mar 3, 2025
  • G0-breast-cancer-atlas Public

    G0 breast cancer atlas

    secrierlab/G0-breast-cancer-atlas’s past year of commit activity
    R 3 GPL-3.0 1 0 0 Updated Feb 12, 2025
  • SpottedPy Public

    Hotspot cluster distance analysis in spatial transcriptomic data

    secrierlab/SpottedPy’s past year of commit activity
    Jupyter Notebook 33 GPL-3.0 0 1 0 Updated Feb 10, 2025
  • EMT-LM Public
    secrierlab/EMT-LM’s past year of commit activity
    Jupyter Notebook 4 GPL-3.0 2 0 0 Updated Sep 26, 2024
  • CancerG0Arrest Public

    Evaluation of cell cycle arrest from transcriptomics data.

    secrierlab/CancerG0Arrest’s past year of commit activity
    R 4 GPL-3.0 1 1 0 Updated Jun 26, 2024
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