Problem with 3D Objects Counter

[María Victoria Pepe]

Hi, I'm having a problem with the 3D Object counter tool. I´m working with
Z-stacks of around 0,5 Gigabyte, and I've noticed that some objects present
in the original image, do not show up in the object map, even though their
fluorescence intensity is way above the threshold and the size is similar
to other objects that appear in the object map

What can Ido?

Thanks

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[Thomas Boudier-4]

Hi Maria,

Did you check that the objects are not touching the edges. If you
checked "exclude objects on edges" it will also remove the objects
touching the edges in Z, meaning objects is first or last slice will be
removed.

hope this helps

best,

Thomas

On 18/05/2016 22:42, María Victoria Pepe wrote:

> Hi, I'm having a problem with the 3D Object counter tool. I´m working with
> Z-stacks of around 0,5 Gigabyte, and I've noticed that some objects present
> in the original image, do not show up in the object map, even though their
> fluorescence intensity is way above the threshold and the size is similar
> to other objects that appear in the object map
>
> What can Ido?
>
> Thanks
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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  /***************************************************************/
       Thomas Boudier, Associate Professor, UPMC,
       Université Pierre et Marie Curie, Paris, France.
       BioInformatics Institute (BII)/IPAL, Singapore.
/**************************************************************/

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[María Victoria Pepe]

Hi Thomas

thanks for the reply, you are very kind, but that is not the problem, maybe
I will try another plugin

best

Victoria

2016-05-19 4:34 GMT-03:00 Thomas Boudier <[hidden email]>:

> Hi Maria,
>
> Did you check that the objects are not touching the edges. If you checked
> "exclude objects on edges" it will also remove the objects touching the
> edges in Z, meaning objects is first or last slice will be removed.
>
> hope this helps
>
> best,
>
> Thomas
>
>
> On 18/05/2016 22:42, María Victoria Pepe wrote:
>
>> Hi, I'm having a problem with the 3D Object counter tool. I´m working with
>> Z-stacks of around 0,5 Gigabyte, and I've noticed that some objects
>> present
>> in the original image, do not show up in the object map, even though their
>> fluorescence intensity is way above the threshold and the size is similar
>> to other objects that appear in the object map
>>
>> What can Ido?
>>
>> Thanks
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>
>>
> --
>  /***************************************************************/
>       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
>

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