Repositories list

• SpatialBrowser

  Public
  A Flask web app for joint visualization of multimodal spatial transcriptomics data

  visualizationflaskbioinformatics+ 5mongodbspatialwebappvisiumxenium

  JavaScript

  •1•0•0•0•Updated Oct 31, 2025Oct 31, 2025

• plot1cell

  Public
  R

  •

  MIT License

  •30•120•0•0•Updated Sep 4, 2025Sep 4, 2025

• IRI_Xenium_Visium

  Public
  Jupyter Notebook

  •0•5•0•0•Updated Sep 2, 2025Sep 2, 2025

• CellScopes.jl

  Public
  A Julia package for single cell and spatial data analysis

  data-vizjulia-packagesingle-cell-omics+ 5scrna-seq-analysisspatial-transcriptomicsvisiumxeniumcartana

  Julia

  •

  MIT License

  •3•9•0•0•Updated Jun 26, 2025Jun 26, 2025

• SHARE-seq-kidney

  Public
  Scripts generating data for our study of human kidney anatomical regions with SHARE-seq and imaging mass spectrometry (Cell Metabolism 2024)

  Jupyter Notebook

  •0•7•0•0•Updated Mar 12, 2025Mar 12, 2025

• kidney_anatomy_chromatin

  Public
  Scripts used in our study of chromatin interaction and modification profiling across human kidney anatomic regions (Scientific Data 2024)

  Jupyter Notebook

  •0•1•0•0•Updated Jul 28, 2024Jul 28, 2024

• Human_DKD_Visium

  Public
  Jupyter Notebook

  •1•0•0•0•Updated Jun 27, 2024Jun 27, 2024

• MALDIpy

  Public
  MALDIpy: a Python package for single-cell analysis of imaging mass spectrometry data (Cell Metabolism 2024)

  Jupyter Notebook

  •1•15•0•0•Updated Jun 12, 2024Jun 12, 2024

• sci-RNA-seq-kidney

  Public
  Scripts used in the project of profiling mouse kidney fibrogenesis with sci-RNA-seq3 (Cell Metabolism 2022)

  Jupyter Notebook

  •0•7•0•0•Updated Jun 3, 2024Jun 3, 2024

• Mouse_IRI_snATAC

  Public
  Single nucleus epigenetic atlas for mouse kidneys with ischemia-reperfusion injury

  Shell

  •0•0•0•0•Updated May 27, 2024May 27, 2024

• 14days_and_more

  Public
  Python

  •1•0•0•0•Updated Mar 16, 2024Mar 16, 2024

• Spatial_analysis

  Public
  Jupyter Notebook

  •

  MIT License

  •0•2•0•0•Updated Sep 10, 2023Sep 10, 2023

• Multimodal_analysis_ADPKD

  Public
  R

  •0•1•0•0•Updated Jun 22, 2023Jun 22, 2023

• Mouse_DKD_Rx_Atlas

  Public
  R

  •4•16•0•0•Updated Apr 11, 2022Apr 11, 2022