Posted by
Василий Попков on
URL: http://imagej.273.s1.nabble.com/3d-segmentation-unit-vs-pixels-measures-tp5015529p5015745.html
Hello.
I have the same problem for spot segmentation. pixel volume = unit volume.
Is there any way to understand what "the real" volume is, from pixel one?
Or to compare to images.
For example if I have 2 objects on different images with 100 pixel volume
and raw images are
7 pixels per µm
1) Voxel size: 0.1428x0.1428x0.25 µm^3
2) Voxel size: 0.1428x0.1428x0.3158 µm^3
Can I count it somehow? Since voxels are not cubical I am a bit confosed.
I guess I can say that V(1)/V(2) = (0.25)/(0.31) am I right?
Can I say, that theirs volume = v(pixel)*0.14*0.14*0.3185 or
v(pixel)*0.14*0.14*0.25?
Thank you for clarifying it.
2016-02-11 10:39 GMT+03:00 Thomas Boudier <
[hidden email]>:
> Hi,
>
> The "simple segmentation" plugin does not copy the calibration properties
> from the raw image to the segmented image, this bug will be fixed in a next
> update.
>
> Best,
>
> Thomas
>
>
> On 03/02/2016 20:07, Василий Попков wrote:
>
>> Good time of a day. I am using 3d segmentation package (
>>
http://imagejdocu.tudor.lu/doku.php?id=plugin:stacks:3d_ij_suite:start).
>> And I have exactly the same values for pixels volumes and unity volumes
>> for
>> each image (in output), which is obviously not true. There is information
>> about voxel size in image info, but it seems it is not used.
>>
>> Anyone can give me a tip how I can make it to give me correct values in
>> mkm?
>>
>>
> --
> /***************************************************************/
> Thomas Boudier, Associate Professor, UPMC,
> Université Pierre et Marie Curie, Paris, France.
> BioInformatics Institute (BII)/IPAL, Singapore.
> /**************************************************************/
>
> --
> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>
--
Vasily A Popkov
Lab.Structure and function of mitochondria
A.N.Belozersky Institute of Physico-Chemical Biology
Moscow State University
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