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    20 repositories

    • STUF

      Public
      Useful functions for spatial transcriptomics data
      spatial-transcriptomics
      Python
      •
      MIT License
      •0•1•0•0•Updated Aug 19, 2025Aug 19, 2025

    • PySingleCellNet

      Public
      singleCellNet in Python
      single-cellcell-type-classificationcell-annotationcell-typing
      Python
      •
      MIT License
      •11•15•1•1•Updated Aug 5, 2025Aug 5, 2025

    • DFMO_EwingSarcoma

      Public
      Code for the transcriptomic analysis described in the paper "Polyamine Depletion Inhibits Ewing Sarcoma Metastasis by Inducing Ferroptosis"
      R
      •0•0•0•0•Updated May 8, 2025May 8, 2025

    • DKK1_OS

      Public
      Python
      •1•1•0•0•Updated Nov 25, 2024Nov 25, 2024

    • onesc_paper

      Public
      Analysis steps associated with oneSC paper
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Nov 20, 2024Nov 20, 2024

    • oneSC

      Public
      infer transcription factors circuits, simulate single cell expression trajectories
      Python
      •2•6•0•0•Updated Nov 7, 2024Nov 7, 2024

    • stemfinder_paper

      Public
      scripts for reproducible analysis of the results presented in the stemfinder paper
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 21, 2024Sep 21, 2024

    • stemfinder

      Public
      estimate cell fate potency from single cell RNA-seq data
      R
      •0•2•1•0•Updated Sep 21, 2024Sep 21, 2024

    • fruitfly_organogenesis

      Public
      Code for analysis of the fruitfly organogenesis paper.
      R
      •0•0•0•0•Updated Jul 17, 2024Jul 17, 2024

    • BMSC_23

      Public
      Python
      •0•0•0•0•Updated May 29, 2024May 29, 2024

    • pyEpoch

      Public
      Epoch, in Python
      Python
      •0•1•0•0•Updated Apr 10, 2024Apr 10, 2024

    • wuhmm

      Public
      Automatically exported from code.google.com/p/wuhmm
      R
      •0•0•0•0•Updated Sep 16, 2023Sep 16, 2023

    • singleCellNet

      Public
      SingleCellNet: classify single cells across species and platforms
      R
      •
      MIT License
      •29•138•7•3•Updated Aug 21, 2023Aug 21, 2023

    • PACNet

      Public
      Platform-agnostic CellNet
      JavaScript
      •
      MIT License
      •1•3•3•0•Updated Aug 1, 2023Aug 1, 2023

    • CellNet

      Public
      CellNet: network biology applied to stem cell engineering
      rna-seqcell-type-classificationstem-cell-differentiation
      R
      •
      MIT License
      •25•54•13•0•Updated May 8, 2023May 8, 2023

    • cancerCellNet

      Public
      CellNet, for cancer
      R
      •
      MIT License
      •3•10•0•0•Updated Jul 14, 2022Jul 14, 2022

    • epoch

      Public
      gene regulatory network reconstruction from scRNA-Seq
      R
      •
      MIT License
      •12•24•1•0•Updated Feb 10, 2022Feb 10, 2022

    • CellNet_Cloud

      Public
      Documentation for launching CellNet in the cloud as a web application, and script for local fastq down-sampling.
      Python
      •
      MIT License
      •0•2•2•0•Updated Mar 30, 2018Mar 30, 2018

    • Web_Framework

      Public
      Web_Framework (a.k.a Radiator) is a cloud-backed computational framework that addresses common barriers to deploying compute-intensive bioinformatics tools
      CSS
      •
      MIT License
      •0•1•0•0•Updated Mar 16, 2018Mar 16, 2018

    • cellnetr

      Public
      CellNet: network biology-based computational platform to assess establishment of cell type specific gene regulatory networks in user-provided gene expression profiles
      R
      •
      Artistic License 2.0
      •5•5•1•0•Updated Aug 21, 2014Aug 21, 2014