[Insight-users] Intensity histogram

[Thibault Varacca]

ok, i will use statistics.
How could I wrapp ITK histogram calculator to simpleitk?


2013/5/7 Bradley Lowekamp <blowekamp at mail.nih.gov>

> Hello,
>
> ITK proper has a very nice framework for creating new thresholds based on
> histograms contributed by Richard Beare and Gaetan Lehmann in the Insight
> Journal[1]. In SimpleITK the ~dozen filters[2] which use this framework are
> available[3].
>
> It may be reasonable to crate a new ITK histogram calculator and matching
> threshold filter, then add the new json wrapping to SimpleITK.
>
> So these methods, are a global threshold, not a connected threshold.
> However, if you run a global threshold followed by a connected component
> algorithm you can get the same result by choosing a selected component. For
> large images with large components this can be more computation efficient,
> and both the global threshold and connected components methods are
> efficiently multi-threaded.
>
> I have also used the Statistics[3] and LabelStatistics[3] image filters to
> compute thresholds based on certain standard deviations. I have also
> computed certain robust nth-order statistics with numpy by getting access
> to image buffer. Unfortunately, this buffer access method is not available
> in Java yet. There is likely just a little bit of SWIG code that is needed,
> and some TESTS written. We aiming to get some community support to put some
> sugar on top for many of the languages that SimpleITK supports. So there
> have been a couple of discussions on the mailing list regarding this
> interface.
>
> There are quite a number of options you have. Please let me know if need
> any additional info deciding what is best for you or help getting started.
>
> Brad
>
> [1] http://hdl.handle.net/10380/3279
> [2] http://www.itk.org/Doxygen/html/group__ITKThresholding.html
> [3] http://www.itk.org/SimpleITKDoxygen/html/annotated.html
> [4]
> http://www.itk.org/SimpleITKDoxygen/html/classitk_1_1simple_1_1StatisticsImageFilter.html
> [5]
> http://www.itk.org/SimpleITKDoxygen/html/classitk_1_1simple_1_1LabelStatisticsImageFilter.html
>
>
> On May 7, 2013, at 7:55 AM, Thibault Varacca <thibault.varacca at gmail.com>
> wrote:
>
> Yes, i'm using JAVA and my volumes are 32 bit float value.
> I want to use an histogram to set automaticaly the lower and upper values
> of the connectedthresholdfilter that i use later.
>
>
> 2013/5/7 Bradley Lowekamp <blowekamp at mail.nih.gov>
>
>> Hello,
>>
>> SimpleITK does not have the Statistics module wrapped.
>>
>> What language are you using with SimpleITK? I have just been using
>> numpy's histogram functionality from python when needed.
>>
>> The AdaptiveHistogramEqualizationImageFilter is a way to vary the
>> intensity of an image so that in a local region of each pixel the histogram
>> has a certain shape. This can be done for local contrast enhancement and
>> similar effects.
>>
>> Brad
>>
>>
>>
>> On May 7, 2013, at 7:44 AM, Thibault Varacca <thibault.varacca at gmail.com>
>> wrote:
>>
>> But using simpleITK, I juste have
>> AdaptiveHistogramEqualizationImageFilter() ... Do you know how it works? I
>> didn't really understand the description.
>> Regards
>>
>>
>> 2013/5/7 Thibault Varacca <thibault.varacca at gmail.com>
>>
>>> Thank you Parseval :)
>>>
>>>
>>> 2013/5/7 parseval <cabkai at web.de>
>>>
>>>> Hi,
>>>>
>>>> in "<Itk-Folder>\Examples\Statistics\"
>>>> you can find several examples of ImageHistograms#.cxx.
>>>> ITK doesn't restrict an image to be 2D. Therefore you can simply modify
>>>> the
>>>> examples for 3D case.
>>>>
>>>> best,
>>>> Parseval
>>>>
>>>>
>>>>
>>>> --
>>>> View this message in context:
>>>> http://itk-users.7.n7.nabble.com/Intensity-histogram-tp31364p31365.html
>>>> Sent from the ITK - Users mailing list archive at Nabble.com<http://nabble.com/>
>>>> .
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>>>
>>>
>>>
>>> --
>>> Thibault Varacca
>>> EFREI Promo 2014
>>> 06 60 53 11 35
>>>
>>
>>
>>
>> --
>> Thibault Varacca
>> EFREI Promo 2014
>> 06 60 53 11 35
>>  _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
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>> Kitware offers ITK Training Courses, for more information visit:
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>
>
> --
> Thibault Varacca
> EFREI Promo 2014
> 06 60 53 11 35
>
>
>


-- 
Thibault Varacca
EFREI Promo 2014
06 60 53 11 35
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