[Insight-users] Attribute opening in 3D images

[David Pastor]

Yes, very useful both packages. As I only need area opening I'll try with 
the Richard's implementation that should be faster.

I've seen what u mean with the coding styles, but I expect it won't be a 
problem.

Just to get it clear to myself, the output is just an image where the peaks 
are thresholded to the level that satisfy the lamda and the rest image is 
left as the original. So at the end we obtain a set of flat regions 
(connected sets) with area = Lambda (with different gray leves) and the 
background original image.

At this point a I need to get a label objects collection for further 
processing. I need an alternative filter to 
"itk::BinaryImageToLabelCollectionImageFilter" for an image with flat 
regions at different levels. Could it be ConnectedComponentsImageFilter?

On the other hand I've seen some related stuff like 
itkLabelAttributeOpeningImageFilter and itkShapeAttributeOpeningImageFilter, 
but I guess they should be used after converting the image into a label 
collection.

Cheers,
DAvid



----- Original Message ----- 
From: "Richard Beare" <richard.beare at gmail.com>
To: "Gaëtan Lehmann" <gaetan.lehmann at jouy.inra.fr>
Cc: "Dan Mueller" <dan.muel at gmail.com>; "David Pastor" 
<david.pastor at die.upm.es>; <insight-users at itk.org>
Sent: Saturday, December 20, 2008 1:05 AM
Subject: Re: [Insight-users] Attribute opening in 3D images


Yes, that's right - the one I wrote only does area/volume attribute
operations, which are the ones I have used most commonly (in fact I
suspect exclusively). It uses the algorithm described by Michael
Wilkinson in PAMI. I think I used some non itk coding styles to allow
direct translation of the algorithm.

On Sat, Dec 20, 2008 at 12:15 AM, Gaëtan Lehmann
<gaetan.lehmann at jouy.inra.fr> wrote:
>
> Le 19 déc. 08 à 12:35, Dan Mueller a écrit :
>
>> Hi David,
>>
>> Richard Beare also contributed some attribute morphology classes
>> (though I'm not sure of the full details/implementation/etc. You'll
>> have to check the paper yourself:
>>
>> http://www.insight-journal.org/browse/publication/203
>>
>
> Err, yes, just forgot to cite this one — I'm using it often though.
> I think it can't handle as much kind of attributes than what can be done
> with component trees, but for the size opening, it gives much efficients
> results.
>
>> Make sure you leave a review!
>>
>> HTH
>>
>> Cheers, Dan
>>
>> 2008/12/19 Gaëtan Lehmann <gaetan.lehmann at jouy.inra.fr>:
>>>
>>> Le 19 déc. 08 à 11:46, David Pastor a écrit :
>>>
>>>> Dear all,
>>>>
>>>> First, just say hello to everybody (this is my first go on the mailing
>>>> list).
>>>>
>>>> We are using ITK for some image processing based on morphology and I'm
>>>> missing some attribute openings (closings) filters on the API. I'd like
>>>> to
>>>> know if there is some ongoing work on that or there is some code that i
>>>> can
>>>> reuse to build up a solution.
>>>>
>>>> I've seen there is an implementation of a Priority Queue... but maybe 
>>>> it
>>>> would be better to use some other potentially faster implementations
>>>> like
>>>> Max trees or Union Sets algorithms.
>>>>
>>>
>>> Hi,
>>>
>>> I've contributed some code both for the grayscale and the binary case.
>>> The
>>> grayscale version is based on max trees - I've called them component
>>> trees.
>>> Both are usable (and used) now, but the one for the grayscale case still
>>> lacks some doc.
>>> You can get it from the insight journal or from the main repository to
>>> get
>>> the last improvements/fixes.
>>>
>>> Binary case:
>>>
>>> http://www.insight-journal.org/browse/publication/176
>>> http://voxel.jouy.inra.fr/darcs/contrib-itk/binaryAttributeMorphology/
>>>
>>> Grayscale case:
>>>
>>> http://www.insight-journal.org/browse/publication/210
>>> http://voxel.jouy.inra.fr/darcs/contrib-itk/componentTree/
>>>
>>> Any comments or improvements are welcome!
>>>
>>> Regards,
>>>
>>> Gaëtan
>>>
>>>
>>> --
>>> Gaëtan Lehmann
>>> Biologie du Développement et de la Reproduction
>>> INRA de Jouy-en-Josas (France)
>>> tel: +33 1 34 65 29 66    fax: 01 34 65 29 09
>>> http://voxel.jouy.inra.fr  http://www.mandriva.org
>>> http://www.itk.org  http://www.clavier-dvorak.org
>>>
>>>
>>> _______________________________________________
>>> Insight-users mailing list
>>> Insight-users at itk.org
>>> http://www.itk.org/mailman/listinfo/insight-users
>>>
>>>
>
> --
> Gaëtan Lehmann
> Biologie du Développement et de la Reproduction
> INRA de Jouy-en-Josas (France)
> tel: +33 1 34 65 29 66    fax: 01 34 65 29 09
> http://voxel.jouy.inra.fr  http://www.mandriva.org
> http://www.itk.org  http://www.clavier-dvorak.org
>
>
> _______________________________________________
> Insight-users mailing list
> Insight-users at itk.org
> http://www.itk.org/mailman/listinfo/insight-users
>
>

-- 
This message has been scanned for viruses and
dangerous content by MailScanner, and is
believed to be clean.