Re: Quantifying Stained Retina

Posted by NatyC on
URL: http://imagej.273.s1.nabble.com/Quantifying-Stained-Retina-tp5000880p5000882.html

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]
>> _____________________________
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.**html<http://imagej.nih.gov/ij/list.html>
>>
>
>

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