ma-compbio/SpiceMix
spatial transcriptome, single cell
SpiceMix helps biologists and researchers analyze spatial transcriptomics data, like MERFISH or Visium, to understand cell identities within tissue samples. It takes normalized gene expression profiles and cell neighborhood graphs as input and outputs a more meaningful representation of cell identity, considering their spatial relationships. This tool is designed for scientists studying complex biological tissues at a cellular level.
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Use this if you need to uncover underlying patterns and cell identities from spatial transcriptomics data, considering how cells interact with their neighbors.
Not ideal if your data lacks spatial information or if you are looking for a supervised method that uses existing cell type labels for training.
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74
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8
Language
Jupyter Notebook
License
MIT
Category
Last pushed
Mar 18, 2023
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0
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