CytoBulk 0.1.1

Integrating transcriptional data to decipher the tumor microenvironment with the graph frequency domain model

CytoBulk

The algorithm for mapping bulk data to spatial HE image.

Usage

For testing the CytoBulk class, you may refer the test.py file.

• CytoBulk is the major class which contains the full framework.

• graph_deconv offer the function of deconvolution and mapping sc to bulk file.

• image_prediction could predict the cell type and expression from HE image.

• 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.

• utils give the basic functions.

• to check the doc, run

pip install mkdocs mkdocs-material
mkdocs serve

Maintainer

WANG Xueying [e-mail]

WANG Yian [e-mail]