Watershed Question

Posted by Sebastian Rhode-3 on May 24, 2011; 7:34am
URL: http://imagej.273.s1.nabble.com/Watershed-Question-tp3684479.html

Hi,

I have an 16bit image with some stained cells and wrote I macro which
automatically detects the cells and converts them into a ROI. First I use
the RATS (treshold) plugin, which yields in in an 8bit BW image. And to
separate overlapping cells, I use "Watershed" from the Process/Binary menu.
This works fine.I end up with well separated ROIs, one for every cells,
after "Analysis particles".

But when I apply the same workflow to the same data on the PC of my
colleague, the watershed does not separate overlapping ROIs. There I end up
with the inverser result. The gaps in between the cells are now the output
after "Analysis particles", sinve the watershed did not separate the
regions. Instead they all got connected by lines.

So I think there must be an option concerning the "Watershed", which allows
me to control this behavior, but I have no idea, where to look for it. any
idea, what my mistake is?

Cheers,

Sebi