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    12 repositories

    • SpaceMarkers

      Public
      An R/Bioconductor software tool to identify genes associated with latent space interactions in spatial transcriptomics.
      R
      •
      Other
      •5•8•19•2•Updated Jul 30, 2026Jul 30, 2026

    • TRACER

      Public
      Tissue Reconstruction via Associative Clique Extraction and Relation-mapping (TRACER)
      Python
      •
      Apache License 2.0
      •1•0•0•3•Updated Jun 24, 2026Jun 24, 2026

    • spQSP_HCC_2025

      Public
      PNAS_2025-25799
      C++
      •1•0•0•0•Updated Jan 19, 2026Jan 19, 2026

    • Spatial_Influence

      Public
      Repository for code to reproduce manuscript figures
      HTML
      •0•0•0•0•Updated Oct 30, 2025Oct 30, 2025

    • data-and-scripts

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Oct 4, 2024Oct 4, 2024

    • SINGE

      Public
      Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data
      MATLAB
      •
      MIT License
      •6•0•0•0•Updated Jun 14, 2024Jun 14, 2024

    • nf_pymc

      Public
      Bayesian Modeling and Probabilistic Programming in Python
      Python
      •
      Other
      •2.3k•0•0•0•Updated Feb 13, 2024Feb 13, 2024

    • configs

      Public
      Config files used to define parameters specific to compute environments at different Institutions
      Nextflow
      •
      MIT License
      •373•0•0•0•Updated Nov 21, 2023Nov 21, 2023

    • py-utils

      Public
      0•0•0•0•Updated Oct 9, 2023Oct 9, 2023

    • SpaceMarkers-paper

      Public
      Scripts used for data analaysis in the manuscript
      Jupyter Notebook
      •1•2•1•0•Updated Oct 4, 2023Oct 4, 2023

    • nf-tower

      Public
      Nextflow Tower system
      Groovy
      •
      Mozilla Public License 2.0
      •57•0•0•0•Updated Feb 2, 2023Feb 2, 2023

    • prgpmf

      Public
      Poisson-randomized gamma Poisson matrix factorization
      Python
      •3•0•0•0•Updated Feb 14, 2020Feb 14, 2020
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