Integrating transcriptional data to decipher the tumor microenvironment with the graph frequency domain model
Project description
CytoBulk
The algorithm for mapping bulk data to spatial HE image.
Usage
For testing the CytoBulk class, you may refer the test.py file.
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CytoBulk is the major class which contains the full framework.
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graph_deconv offer the function of deconvolution and mapping sc to bulk file.
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image_prediction could predict the cell type and expression from HE image.
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spatial_mapping use spot data and mapped sc data to reconstruct the spot data at single cell resolution. Then will refine the single cell coordinates based on HE cell segmentation results.
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utils give the basic functions.
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to check the doc, run
pip install mkdocs mkdocs-material
mkdocs serve
Maintainer
WANG Xueying xywang85-c@my.cityu.edu.hk
WANG Yian yianwang5-c@my.cityu.edu.hk
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