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SpaHDmap
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General

  • Installation
  • Tutorials
    • Step-by-step guide for analysis of H&E-stained imaging data
    • Analysis of IHC-stained imaging data
    • Analysis of multi-section ST data
    • Running SpaHDmap from the command line
    • Select the optimal dimension of SpaHDmap
    • Transfer a pre-trained model to new data
    • Spatial domain refinement
    • Correct image batch effects using color normalization
    • Differential expression and GO enrichment analysis
    • How to download and prepare data
  • API
    • Mapper
    • Data Handling
      • SpaHDmap.data.prepare_stdata
      • SpaHDmap.data.select_svgs
    • Model

About

  • GitHub
  • Paper
  • Xi Lab
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APIΒΆ

Import SpaHDmap as follows:

import SpaHDmap as hdmap
  • Mapper
    • Mapper
  • Data Handling
    • STData
    • SpaHDmap.data.prepare_stdata
    • SpaHDmap.data.select_svgs
  • Model
    • SpaHDmapUnet
    • GraphAutoEncoder
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How to download and prepare data
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