Re: Quantifying Stained Retina

Posted by Rob van 't Hof-2 on
URL: http://imagej.273.s1.nabble.com/Quantifying-Stained-Retina-tp5000880p5000885.html

Hi,
I can't see much blue in your sample, mostly pink/purple. is the
material you want to measure the intensely stained pink roughly circular
object that run diagonally (top left to bottom right) along the image?
bye,
rob

On 19/11/2012 19:51, Natalia Chacon wrote:

> On Mon, Nov 19, 2012 at 1:36 PM, Natalia Chacon
> <[hidden email]>wrote:
>
>> I mean to quantify the amount of blue staining. Now the staining
>> correlates to the amount of iron in my sample.
>> Here is an image of my sample.
>>
>>
>> On Mon, Nov 19, 2012 at 11:33 AM, Rob van 't Hof <
>> [hidden email]> wrote:
>>
>>> Hi Natalia,
>>> A very usefull plugin for analysing stained specimens is Gabriel
>>> Landini's colour deconvolution one (http://www.dentistry.bham.ac.**
>>> uk/landinig/software/cdeconv/**cdeconv.html<http://www.dentistry.bham.ac.uk/landinig/software/cdeconv/cdeconv.html>).
>>> This is a very powerful plugin to separate different stains.
>>>
>>> When you say "quantify" do mean mean measuring area covered with stain or
>>> stain intensity (a contentious issue, see documentation to plugin).
>>>
>>> You did not add an example image, so i don't know exactly what you want
>>> to do. If you add an example image, people like me could create a basic
>>> macro to show you how to do this kind of stuff.
>>>
>>> bye,
>>> Rob
>>>
>>>
>>> On 19/11/2012 17:07, Natalia Chacon wrote:
>>>
>>>> Hello everyone,
>>>>
>>>> I'm a new user of the ImageJ program.
>>>> I'm currently working on a project where I have to quantify the amount of
>>>> blue staining in an image.
>>>>
>>>> I've already found an article that is similar to what I'm doing, except
>>>> its
>>>> quantifying a red stain instead of a blue one.
>>>> (Link provided here:
>>>> http://rsbweb.nih.gov/ij/docs/**examples/stained-sections/**index.html<http://rsbweb.nih.gov/ij/docs/examples/stained-sections/index.html>
>>>> )
>>>>
>>>> While this process will work from me, it seems I can't
>>>> *Adjust>Threshold* so
>>>>
>>>> that I can quantify the blue!
>>>>
>>>> Please Advise.
>>>> Thanks,
>>>> Natalia
>>>>
>>>> --
>>>> ImageJ mailing list: http://imagej.nih.gov/ij/list.**html<http://imagej.nih.gov/ij/list.html>
>>>>
>>>>
>>> --
>>> _____________________________
>>> Dr. Rob van 't Hof
>>> Reader
>>>
>>> Centre for Molecular Medicine
>>> MRC IGMM
>>> University of Edinburgh
>>> Western General Hospital
>>> Crewe Road, Edinburgh EH4 2XU
>>> United Kingdom
>>>
>>> Phone: [phone]
>>> email: [hidden email]
>>> _____________________________
>>>
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>>>
>>
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--
_____________________________
Dr. Rob van 't Hof
Reader

Centre for Molecular Medicine
MRC IGMM
University of Edinburgh
Western General Hospital
Crewe Road, Edinburgh EH4 2XU
United Kingdom

Phone: [phone]
email: [hidden email]
_____________________________

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