Hi Steela,
I think your questions are answered in this paper
https://imagejdocu.tudor.lu/_media/plugin/analysis/jacop_2.0/just_another_colocalization_plugin/jacop_ijconf2008.pdf . It describes the thresholding options and how they are implemented in JACOP.
You should also read the original paper if you haven’t already.
Kind regards,
Jacqui
From: ImageJ Interest Group <
[hidden email]> On Behalf Of Steela Hong
Sent: Tuesday, February 2, 2021 12:07 AM
To:
[hidden email]
Subject: Help with JACoP plugin
Hi,
I am using the JACoP plugin in ImageJ for analysing colocalisation of two
proteins.
The output looks like this:
Image A: Image 1.lsm - C=1
Image B: Image 1.lsm - C=2
Pearson's Coefficient:
r=0.522
Manders' Coefficients (original):
M1=0.67 (fraction of A overlapping B)
M2=0.598 (fraction of B overlapping A)
Manders' Coefficients (using threshold value of 2 for imgA and 11 for imgB):
M1=0.565 (fraction of A overlapping B)
M2=0.541 (fraction of B overlapping A)
Costes' automatic threshold set to 2 for imgA & 5 for imgB
Pearson's Coefficient:
r=0.413 (0.0 below thresholds)
M1=0.862 & M2=0.943
--------------------------------------------------------------------------------------------------
After the analysis, I get three sets of Mander's coefficient values.
My question is what is the thresholding method used here for calculating
Mander's coefficient with threshold. How does ImageJ determine the
threshold intensity for each channel?
And second, how is this thresholding method different from Coste's
automatic thresholding?
Thank you so much.
Steela Hong
PhD Candidate
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