Export image for each object


Is there a method to export an individual image for each object (e.g. nucleus) identified in an image? Ideally I would like to create a crop area for each object that could be used to crop the same region from multiple channels.



Hi David,

Unfortunately, this ability does not exist in CellProfiler. An alternative approach is to save the objects as a grayscale label matrix, with all objects contained in the image, but then you would need to use a 3rd-party software package (e.g., MATLAB) to process the image to extract the labels and use it as a mask for the original image, crop it accordingly for each object and save it.