Hi everyone, I am currently working on lung fibrosis research on rat models of interstitial lung disease, I have problems with quantification of lung fibrosis on ImageJ. I used Masson trichrome staining on my research. I have read several papers with several different methods such as posted on ImageJ website (https://imagej.nih.gov/ij/docs/examples/stained-sections/index.html), color deconvolution (Ying Chen et al.) and other macro (Hadi AM, et al.; Kennedy DJ, et al.) but I don't think the published macro can accurately quantify fibrosis on my images.
Any suggestion of automated or semi automated methods on how to do it on Image J? Or maybe someone can point out studies with macro text who can be tried aside from the aforementioned study?
Thanks in advance.
Hello, I am aware that you tried color deconvolution by ying Chen. Have you tried color deconvolution2 by Gabriel Landini et, al.? currently I am using this plugin to quantify collagen. Here is the link to the tutorial video. https://www.youtube.com/watch?v=NxNEf1XSPTk
Nandaraj Taye , thanks for the answer, however from the linked youtube video there is no explanation how to decide the threshold. How do I choose the best threshold of lung tissue for example, because different threshold will result in different area fraction. Maybe you can give suggestion on the threshold for quantifying collagen in lung tissue. Thank you.
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