Re: 3D volume measurement

Posted by Mauricio Aguirre Morales on Oct 13, 2014; 2:07pm
URL: http://imagej.273.s1.nabble.com/3D-volume-measurement-tp5009960p5010014.html

Dear Thomas
Thank you very much for your answer. One of the problems I have also
encountered is the background noise and artifacts in my sample which I
cannot remove, otherwise I will end up without any signal at all. Thus I
am pushing more if possible for a manual selection, however so far I
have not yet found the way.

El 09/10/2014 03:26 a.m., Thomas Boudier escribió:

> Dear Mauricio,
>
> If you only want the volume of your object, just look at the
> histogram, the number of white pixels (or voxels in 3D) will give you
> the uncalibrated volume, multiply this number by the calibrated volume
> of one voxel. For more complex analysis like shape descriptors use 3D
> Object Counter or 3D Manager.
>
> Best,
>
> Thomas
>
>
> On 08/10/14 22:39, Mauricio Aguirre Morales wrote:
>> Dear Community
>>
>> I am trying to quantify the volume of a hypha in a stack of images. The
>> 3D model was made with a CLSM and I have done some treatment
>> (brightness-contrast, 3D filters, etc) and finally aquire a model that
>> could be transformed into 8 bit and being black and white with "white"
>> fungi and black background or just not fungi. When I use the option 3D
>> viewer in the description there is a volume displayed but I wonder how
>> this volume is acquired and furthermore I would really appreciate if
>> somebody can tell me a better, more accurate way to measure a volume or
>> even a manual selection way slide after slide or something similar.
>>
>

--
Sincerely
Mauricio Aguirre Morales

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