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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 152 19

  2. STalign STalign Public

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

    HTML 94 23

  3. CRAWDAD CRAWDAD Public

    Cell-type Relationship Analysis Workflow Done Across Distances

    R 39 6

  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 7

  6. STARIT STARIT Public

    Spatial Transcriptomics As Rasterized Tensors (STARIT)

    Jupyter Notebook 1

Repositories

Showing 10 of 28 repositories
  • CellCarto-3DEEP Public

    3DEEP Hair Follicle Data Explorer

    JEFworks-Lab/CellCarto-3DEEP’s past year of commit activity
    JavaScript 0 0 0 0 Updated Jan 14, 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
  • genomic-data-visualization-2026 Public
    JEFworks-Lab/genomic-data-visualization-2026’s past year of commit activity
    JavaScript 0 1 0 0 Updated Jan 11, 2026
  • CellCarto-OvulationSlideseq Public

    Cellular Cartography Spatial Transcriptomics Data Explorer for a Time-course of ovulating mouse ovaries assayed by Slide-seq

    JEFworks-Lab/CellCarto-OvulationSlideseq’s past year of commit activity
    JavaScript 2 GPL-3.0 0 0 0 Updated Jan 5, 2026
  • CellCarto-MouseEmbryoMERFISH Public

    Cellular Cartography Spatial Transcriptomics Data Explorer for an E15.5 mouse embryo assayed by MERFISH

    JEFworks-Lab/CellCarto-MouseEmbryoMERFISH’s past year of commit activity
    JavaScript 0 GPL-3.0 0 0 0 Updated Dec 30, 2025
  • SVG-Text-Standardizer Public

    standardize text sizes, fonts, and remove stretching for publication-quality figures

    JEFworks-Lab/SVG-Text-Standardizer’s past year of commit activity
    JavaScript 1 GPL-3.0 0 0 0 Updated Dec 29, 2025
  • jefworks-lab.github.io Public
    JEFworks-Lab/jefworks-lab.github.io’s past year of commit activity
    Jupyter Notebook 4 CC-BY-4.0 30 1 0 Updated Dec 26, 2025
  • 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 13 GPL-3.0 2 3 0 Updated Dec 19, 2025
  • 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 7 0 1 0 Updated Dec 15, 2025
  • STARIT Public

    Spatial Transcriptomics As Rasterized Tensors (STARIT)

    JEFworks-Lab/STARIT’s past year of commit activity
    Jupyter Notebook 1 GPL-3.0 0 0 0 Updated Dec 10, 2025
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