[ITK] [ITK-users] Write a result image witout resampling

[Dženan Zukić]

Hi Suneeza,

what is your input data format? Which tool are you using to visualize the
images? DICOM can have a lot of metadata, including a predefined window and
level. To eliminate some of the variables, can you use .mha or .nrrd format
for both input and output, and use a simple viewer such as ITK-SNAP
<http://www.itksnap.org/pmwiki/pmwiki.php> to view and compare the images?
Also worth verifying is that both input and output format have the same
pixel type e.g. unsigned short.

Regards,
Dženan

On Thu, Feb 11, 2016 at 11:16 AM, suneeza hanif <suneezahanif02 at gmail.com>
wrote:

> Hello Simon,
>
> Thank you for your reply.
>
> The problem is after doing registration, the transformed image is written
> in a file. The quality of transformed image is not same as moving image.
> When I change the window and level of an image then it look similar.
>
> Best Regards,
> Suneeza
>
> On Thu, Feb 11, 2016 at 4:41 PM, Simon Alexander <skalexander at gmail.com>
> wrote:
>
>> In general it is only going to be possible to avoid re-sampling when your
>> transform is strictly rigid (i.e. the sampling lattice of the image can be
>> rigidly transformed and remain regularly shaped).   Rescaling the intensity
>> is a completely different issue, but can be used to avoid introducing extra
>> quantization error, for example if you use floating point images in ways
>> that will adjust the value range and then casting them to an integer type.
>>
>> What are you trying to achieve?
>>
>> On Wed, 10 Feb 2016 at 16:57 suneeza hanif <suneezahanif02 at gmail.com>
>> wrote:
>>
>>> Hello Gabriel,
>>>
>>> I have same problem when I do re-sampling, image quality is not same as
>>> before. You mentioned that you changed the cast filter type to  RescaleIntensityImageFilter
>>> type but when I tried to change it I got an error. As  RescaleIntensityImageFilter
>>> type already contains input and output image type and casting filter type
>>> also needs input and output image type.
>>>
>>> Can you please tell me in detail how did you manage to get the desired
>>> results. This would be of great help.
>>>
>>> Thanks.
>>>
>>> Best Regards,
>>> Suneeza
>>>
>>> On Tue, Jan 26, 2016 at 6:57 PM, Gabriel A. Giménez <
>>> gabrielgimenez85 at gmail.com> wrote:
>>>
>>>> Thanks Dženan Zukić...., I changed the cast filter type
>>>> to RescaleIntensityImageFilter and I got the expected result.
>>>>
>>>> Best Regards...
>>>>
>>>> 2016-01-10 16:22 GMT-03:00 Dženan Zukić <dzenanz at gmail.com>:
>>>>
>>>>> Hi Gabriel,
>>>>>
>>>>> you probably need to use interpolation method of a higher quality for
>>>>> the final resampling, i.e. windowed sinc
>>>>> <http://www.itk.org/Doxygen/html/classitk_1_1WindowedSincInterpolateImageFunction.html>
>>>>> instead of linear
>>>>> <http://www.itk.org/Doxygen/html/classitk_1_1LinearInterpolateImageFunction.html>
>>>>> .
>>>>>
>>>>> Regards,
>>>>> Dženan
>>>>>
>>>>> On Fri, Jan 8, 2016 at 9:17 PM, Gabriel A. Giménez <
>>>>> gabrielgimenez85 at gmail.com> wrote:
>>>>>
>>>>>> Hi everyone...how are you ?
>>>>>>
>>>>>> I'm going to point, to finish the registration process build the new
>>>>>> transformed fixed image (based on the manual examples), but the quality of
>>>>>> the generated image is degraded...how I can create a new image with the
>>>>>> same quality as the original image? I just need to apply the transformation
>>>>>> parameters.
>>>>>>
>>>>>> Regards and thanks in advance,
>>>>>>
>>>>>> --
>>>>>> *Gabriel Alberto Giménez.*
>>>>>>
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>>>>>
>>>>
>>>>
>>>> --
>>>> *Gabriel Alberto Giménez.*
>>>>
>>>> _____________________________________
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