[Castor-users] Fwd: How to apply attenuation correction for PET reconstruction using GATE root data

[Xinjie Cao]

---------- Forwarded message ---------
From: Xinjie Cao <xinjie.cao at stonybrook.edu>
Date: Wed, Jul 15, 2020 at 10:43 AM
Subject: Re: [Castor-users] How to apply attenuation correction for PET
reconstruction using GATE root data
To: Suguru Katsube <sug.katsu at gmail.com>


Hi Suguru,

I am also curious about how to generate the attenuation correction image
and have a few questions, could you share some experience about that?

1) Which kind of phantom are you using? Normal phantom or voxelized phantom?
2) What tool did you use for generating the attenuation image? GATE or
CASToR?

Any reply will be highly appreciated! Thank you!

Best,

On Wed, Jul 15, 2020 at 6:29 AM Suguru Katsube <sug.katsu at gmail.com> wrote:

> Dear Thibaut Merlin,
>
> Thank you for your quick response.
> Successfully, I made the attenuation image. Then, I made **.cdh and **.cdf
> with attenuaton correrction using castor-GATERootToCastor (This is
> list-mode format for reconstructing with scatter and random correction).
>
> When I run castor-recon, the message below was displayed.
>
>
>
>
> ****** oSensitivityGenerator::InitializeAttenuationFiles() -> Attenuation
> correction is included in the data file while it is not in the sensitivity
> computation !***** oSensitivityGenerator::Initialize() -> A problem
> occurred while initializing the attenuation files !***** castor-recon() ->
> A problem occurred while initializing the sensitivity generator !*
>
> I know that the attenuation image MUST be providen to the castor-recon exe
> as well, in order to perform sensitivity image computation for PET
> list-mode. How should I provide attenuation image to reconstruct the data?
>
> Thank you in advance.
> Best regards,
>
> Suguru
>
> 2020年6月30日(火) 0:00 tmerlin <Thibaut.Merlin at univ-brest.fr>:
>
>> Hi Suguru,
>>
>> Attenuation image must be in interfile format, and must be in cm-1. The
>> dimensions/voxel sizes will be interpolated to the reconstruction image
>> dimensions, so you don't need to provide an image with the exact same
>> dimensions than for the reconstruction. Additionally, you should make sure
>> that the reconstruction image dimensions are large enough to include all
>> attenuated materials of the attenuation image, otherwise the attenuation
>> correction will be incorrect.
>>
>> Regarding the image itself, you should generate it from the geometry of
>> the phantom you use in the GATE simulation, or derive it directly from the
>> phantom image if you used a voxelized phantom.
>>
>> Hope this helps,
>>
>> Thibaut
>>
>>
>> On 29/06/2020 09:57, Suguru Katsube wrote:
>>
>> Hi all,
>>
>> I am trying to reconstruct a GATE root file (PET).
>> I want to apply attenuation correction and reconstruct it. The manual
>> states I need an attenuation image, how do I create it ? The phantom was
>> designed on a GATE and no CT images were acquired. There are many unclear
>> points such as image format, number of pixels, number of slices, alignment,
>> etc. Can I create the attenuation image using a root file or mac file?
>>
>> Any advice is appreciated.
>>
>> Best regards,
>>
>> --
>> ○●----------------------------------------------------------●○
>> 勝部 俊（Suguru Katsube）
>>
>> 九州大学大学院医学系学府保健学専攻
>>
>> 医用量子線科学分野 修士課程2年
>>
>>
>> Medical Quantum Radiation Science Course,
>>
>> Department of Health Sciences,
>>
>> Graduate School of Medical Sciences,
>>
>> Kyushu University, Fukuoka, Japan
>>
>> E-mail: sug.katsu at gmail.com <E-mail%3Aymmk88kmmy at gmail.com>
>> ○●----------------------------------------------------------●○
>>
>> _______________________________________________
>> Castor-users mailing listCastor-users at lists.castor-project.orghttp://lists.castor-project.org/listinfo/castor-users
>>
>> --
>> Thibaut MERLIN -- PhD
>>
>> Docteur en Imagerie Médicale au Laboratoire de Traitement de l'Information Medicale (LaTIM - INSERM UMR 1101)
>> Institut Brestois de recherche en Bio-Santé (IBRBS)
>> 12 Avenue Foch, 29200 Brest, FRANCE
>> Tel: 06.75.12.24.90
>>
>> _______________________________________________
>> Castor-users mailing list
>> Castor-users at lists.castor-project.org
>> http://lists.castor-project.org/listinfo/castor-users
>>
>
>
> --
> ○●----------------------------------------------------------●○
> 勝部 俊（Suguru Katsube）
>
> 九州大学大学院医学系学府保健学専攻
>
> 医用量子線科学分野 修士課程2年
>
>
> Medical Quantum Radiation Science Course,
>
> Department of Health Sciences,
>
> Graduate School of Medical Sciences,
>
> Kyushu University, Fukuoka, Japan
>
> E-mail: sug.katsu at gmail.com <E-mail%3Aymmk88kmmy at gmail.com>
> ○●----------------------------------------------------------●○
> _______________________________________________
> Castor-users mailing list
> Castor-users at lists.castor-project.org
> http://lists.castor-project.org/listinfo/castor-users
>


-- 
*....................................................*
*Xinjie Cao*
*M.E. / Ph.D. student*
*Research Project Assistant*
*Department of Electrical and Computer Engineering & Radiology *
*Novel Medical Imaging Technologies Lab*
*Health Science Center Level 8*
*Stony Brook, NY 11794-8460 *
*Tel: +1 (631)202-9445*
you.stonybrook.edu/goldan/people/
*email: **xinjie.cao at stonybroo*k.edu <xinjie.cao at stonybrook.edu>


*....................................................*
It is prohibited to distribute or publish the files attached to any other
people unless you get permission from the writer himself. All rights
reserved.


-- 
*....................................................*
*Xinjie Cao*
*M.E. / Ph.D. student*
*Research Project Assistant*
*Department of Electrical and Computer Engineering & Radiology *
*Novel Medical Imaging Technologies Lab*
*Health Science Center Level 8*
*Stony Brook, NY 11794-8460 *
*Tel: +1 (631)202-9445*
you.stonybrook.edu/goldan/people/
*email: **xinjie.cao at stonybroo*k.edu <xinjie.cao at stonybrook.edu>


*....................................................*
It is prohibited to distribute or publish the files attached to any other
people unless you get permission from the writer himself. All rights
reserved.
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