Enhancing membrane and removing background

cellprofiler

#1

Hello,

Attached, you will find an example grayscale image of a pretty ineffective membrane stain.

Unfortunately, we cannot redo this stain due to lack of tissue. I need to enhance the membrane while removing the noisy color within the interior of the cell body. I have tried a variety of methods, but was hopeful you could provide a superior method as these attempts have been largely unsuccessful. I need to measure the area of the cell cell body and to do so, I need a pronounced membrane so that the cell bodies are separated appropriately.

Any help would be much appreciated!


#2

Here is a workflow that might help:

  1. Use ilastik to highlight membrane and the space between cells
  2. Use CellProfiler to merge the different labels are create an outline.

bad_membrane.zip (1.9 MB)


#3

Thanks, karhohs. Giving this a shot now.