Dear ImageJears,
I am trying since few days, without success, to have answers to two
questions regarding ImageJ:
1) Can I select based on Pixel intensity ? (I mean SELECT ALL PIXELS
FROM THE IMAGE which are BLACK or WHITE or HAVING SPECIFIC INTENSITY (or
a RANGE) ?)
2)Where can I change the threshold (or any other parametesrs) for Magic
Wand?
I want to measure (quantify) Nuclear Vs Cytoplasm ratio intensity in
immunofluorescence stained cultured cells.
This is what I do:
A ) For Nuclear Part:
I take the Hoechst (DNA only) slice and threshold it - and this gives
sharp good edges - then if I use Magic Wand I can select the nuclei.
Copy and Paste it to the Slice which I want to measure the area and
intensity (the SLICE whith the protein of interest)
If I hit UNDO, ONLY the SELECTION REMAINS into the NEW SLIDE. This is
excellent because now I have traced Nuclei and I can press M to measure
B) For the CYTOPLASM PART (THIS IS WHERE I NEED HELP)
If I do the same procedure as above, because the edges of the cells are
not so sharp, the MAGIC WAND DOES NOT WORK IN SELECTING PROPERLY (as I
have to keep SHIFT and SELECT)
I would like to SELECT ALL THE WHITE or BLACK PIXELS (or a SPECIFIC
RANGE ) and HAVE THE
SELECTION use in the real image in which I want to measure the whole
cell area and mean intensity.
If anyone wish to help me through the phone it will be so greatly
appreciated (office phone 507-284-9505)
Alternatively we can use VNC so you can see my screen and see what I am
talking about.
Once again, I am looking forward for your advice.
Respectfully,
Acu Ilie Dorin
Ph.D. Student - Tumor Biology
Mayo Clinic College of Medicine
Email:
[hidden email]
Office Phone: 507 - 284-9505
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