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@JEFworks-Lab

JEFworks Lab

JEFworks Lab at Johns Hopkins University

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  1. STdeconvolve STdeconvolve Public

    Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data

    R 159 20

  2. STalign STalign Public

    Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping

    HTML 106 26

  3. CRAWDAD CRAWDAD Public

    Cell-type Relationship Analysis Workflow Done Across Distances

    R 42 7

  4. SEraster SEraster Public

    Spatial Experiments raster - a rasterization preprocessing framework for scalable spatial omics data analysis

    R 19 5

  5. STcompare STcompare Public

    STcompare is an R package for comparing spatial gene expression patterns across spatial transcriptomics (ST) datasets

    R 10 1

  6. STARIT STARIT Public

    Spatial Transcriptomics As Rasterized Tensors (STARIT)

    Jupyter Notebook 3

Repositories

Showing 10 of 29 repositories
  • jefworks-lab.github.io Public
    JEFworks-Lab/jefworks-lab.github.io's past year of commit activity
    Jupyter Notebook 4 CC-BY-4.0 32 1 0 Updated Sep 22, 2026
  • STARIT Public

    Spatial Transcriptomics As Rasterized Tensors (STARIT)

    JEFworks-Lab/STARIT's past year of commit activity
    Jupyter Notebook 3 GPL-3.0 0 0 0 Updated Aug 26, 2026
  • CellCarto-3DEEP Public

    3DEEP Hair Follicle Data Explorer

    JEFworks-Lab/CellCarto-3DEEP's past year of commit activity
    JavaScript 0 1 0 0 Updated Jul 20, 2026
  • CellCarto-ColdIschemia Public
    JEFworks-Lab/CellCarto-ColdIschemia's past year of commit activity
    CSS 0 MIT 0 0 0 Updated Jul 10, 2026
  • STcompare Public

    STcompare is an R package for comparing spatial gene expression patterns across spatial transcriptomics (ST) datasets

    JEFworks-Lab/STcompare's past year of commit activity
    R 10 1 2 1 Updated Jul 10, 2026
  • MERINGUE Public

    characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular densities

    JEFworks-Lab/MERINGUE's past year of commit activity
    R 100 GPL-3.0 7 8 0 Updated Apr 30, 2026
  • genomic-data-visualization-2026 Public
    JEFworks-Lab/genomic-data-visualization-2026's past year of commit activity
    JavaScript 0 28 0 0 Updated Apr 17, 2026
  • Mentorship-Index Public

    A website for calculating a scientist's Mentorship Index (M-index), which measures a their contribution to mentoring early-career scientists.

    JEFworks-Lab/Mentorship-Index's past year of commit activity
    HTML 3 0 0 0 Updated Apr 15, 2026
  • off-target-probe-tracker Public

    Pipeline to predict off-target binding via probe sequences

    JEFworks-Lab/off-target-probe-tracker's past year of commit activity
    Python 16 GPL-3.0 2 1 0 Updated Mar 13, 2026
  • GestureGraph Public

    Gesture-based Interactive Exploration of Single Cell Embeddings

    JEFworks-Lab/GestureGraph's past year of commit activity
    JavaScript 1 GPL-3.0 1 0 0 Updated Jan 13, 2026
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