3D object based colocalization using KNIME

czhang's picture
Workflow Author: 

Juergen Reymann

Workflow Language: 
Input data type: 
3D image stacks for each channel
Output data type: 
image with colocalized objects, KNIME results table with object feature statistics
Example Image URL: 
Comment / Instructions: 

These two similar KNIME workflow solutions take 3D data stacks to segment the spots first, using local thresholding with subsequent morphological operations in order to remove noise. Colocalization is then defined by overlapping or center point distance between segmented objects. Further filtering such as overlapping ratio or distance range is done through KNIME table processing.

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