http://imagej.273.s1.nabble.com/standardize-an-image-tp5005105p5005118.html
"a wish" of course...
Le 10 oct. 2013 à 09:52, Stanislav Aggerwal a écrit :
> Thanks very much Michael!
>
> best,
> Stan
>
>
> On Wed, Oct 9, 2013 at 6:59 PM, Michael Schmid <
[hidden email]>wrote:
>
>> Hi Stanislav,
>>
>> looks like a task for a simple macro:
>>
>> run("32-bit"); //convert to floating-point data
>> setThreshold(1e-30, 1e30);
>> run("Create Selection"); //select only pixels with value>0
>> getStatistics(area, mean, min, max, std);
>> run("Subtract...", "value=&mean");
>> run("Divide...", "value=&std");
>> run("Max...", "value=4.5"); //limit pixel values
>> run("Min...", "value=-4.5");
>> resetMinAndMax(); //display actual range of pixel values
>> //setMinAndMax(-4.5000, 4.5000); //alternatively, use this for 0-255
>> run("Conversions...", "scale weighted"); //use displayed range
>> run("8-bit"); //Conversion to to 8 bits per pixel
>>
>> If you want to keep the original image, duplicate it before starting.
>> To determine how to do this in a macro, use Process>Macros>Record and do
>> the operation manually.
>>
>> Michael
>> ________________________________________________________________
>>
>>
>> On Oct 9, 2013, at 16:55, Stanislav Aggerwal wrote:
>>
>>> I would like to do the following, which I give below in pseudocode.
>>>
>>> Let's call the image z
>>> znew=standardize(z)
>>>
>>> standardize(z)
>>> {
>>> zz = (z[z>0]-mean(z[z>0]))/sd(z[z>0])
>>> #where z[z>0] means the pixels that have greylevels >0
>>> zz[zz>4.5] = 4.5
>>> zz[zz< -4.5] = -4.5
>>> zz=rescale(zz, 0, 255) #rescale the zz values to be in the range
>> (0,255)
>>> return(zz)
>>> }
>>>
>>> Could someone please tell me how to do this with ImageJ/Fiji?
>>>
>>> Thanks very much for any help.
>>>
>>> Stan
>>>
>>> --
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http://imagej.nih.gov/ij/list.html>>
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>
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