In talking to my labmates who want to do “semi-high throughput” analysis (ie maybe 100 images- enough that they’d like computational aid but not so many that they can’t sit there and oversee the output), one of their biggest complaints/barriers to hopping on the CellProfiler bandwagon has been that if, for example, Identify Primary Objects cuts a cell in half, they have to throw that object out and lose the data from it. Ideally, what they’d like would be something along the lines of
Identify Primary Objects- let the computer try to initially identify, say, nuclei
Edit Objects Manually- throw out the misidentified nuclei
OverlayOutlines- show the outlines of the edited nuclei on the original image
Identify Objects Manually- show the image with the overlaid outlines and then go through and circle/outline the nuclei you want to add
Ideally, these manually identified nuclei could then be combined with those from EditObjectsManually into a single class for use in whatever downstream steps (IdentifySecondaryObjects, etc).
Is there a way to do this? Thanks as always!