Description

Unsupervised machine learning for cell type identification in multiplexed imaging using protein expression and cell neighborhood information without ground truth

Input

Name
Description
Pattern

0 ()

1 ()

signature (file)

Signature Matrix containing the definition of cell types according to markers

*.csv

high_thresholds (file)

csv file with user-defined probability high thresholds for anchor cell (row 1) and index cell (row 2) definition

*.csv

low_thresholds (file)

optional csv file with user-defined probability low thresholds for anchor cell (row 1) and index cell (row 2) definition

*.csv

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

Tools

celesta Documentation

Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information

https://github.com/plevritis-lab/CELESTAdoi: 10.1038/s41592-022-01498-zLicense: Apache-2.0
Authors