[Insight-users] Fuzzy connectedness 3D

[Luis Ibanez]

Hi Alex,

There shouldn't be any problem for reading your
data set from a group of DICOM slices and passing
it to the FuzzyConnectedness filter.

The 2 hours that you are experiencing for a
512 x 512 x 70 is excesive.

Using this filter for extracting the ventricles
from one of the BrainWeb images (181 x 200 x 180 )
takes about 1 minute in a Pentium 4, at 2.4Ghz.

What anatomical structure are you trying to
segment from your CT data ?


Some questions:

1) Did you compile your code for Release ?
    (e.g. -O3 in gcc, or /Release in VisualStudio).

2) How are you providing the estimation of the
    Mean value to the filter ?

3) How are you providing the estimation of the
    Variance to the filter ?



You may want to experiment first with the demo
application

       InsightApplications/
               RegionGrowingSegmentaiton


where the FuzzyConnectendes filter is on the GUI.
Note that you must provide Variance, not standard
deviation. Therefore typical values for an MRI are
in the range of 100s while values in a CT may be
in the range of 1e4 to 1e6.


Regards,


    Luis


---------------------
Alex Houston wrote:

> Hi All
>  
> I am using the implementation of simplefuzzy connectedness in ITK.
>  
> I ran it perfectly for the 2D (e.g tiff, Dicom image) it runs fine.
>  
> I have the CT scan data (dicom slices) i need to run the same thing for 
> this data.
>  
>  
>  From ITK i used  part of the DicomSeriesReadImageWrite.cxx to read the 
> data and then pass the data to fuzzysegmenter
>  
> I am not sure what I am doing wrong? Is there a better way to do it
>  
> But it takes long time to run the progam about 2 hrs for 70 slices (512 
> X 512 CT dicom)
> The result is not accurate on visual inspection of the output.
>  
> Please help me with some advice
>  
> Thanks
>  
> Alan Houston
>  
>  
>