Would anyone be able to suggest the best software/tool for manually outlining objects of more than one class (e.g. Cell Type 1, Cell Type 2) and then being able to save all of:
- The combined mask for all objects (instance-level; uint8)
- The separate masks for each of the two or more classes of objects (instance-level; uint8)
I have considered using the IdentifyObjectsManually module in CellProfiler but it doesn’t seem to be possible to label more than one class of object on the same image in one pass and recombining two separate masks faithfully seems tricky (Converting Objects to Images, Saving Images, Image Math on images, Identifying Primary Objects, etc.).
I have also thought about using the ROI Manager on FIJI ImageJ. Is there a tool/script available to identify different classes of object in one pass on here and save the separate and combined masks in one go (uint8 object level)?
Alternative suggestions also appreciated!