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UCL / PETPVC

Partial Volume Correction in PET
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PVC in Oncology #10

Closed madyankoh closed 6 years ago

madyankoh commented 7 years ago

Hello Dear Thomas

How can I use the PVC Regain-Based methods in oncology?

Thanks

bathomas commented 7 years ago

Hi @madyankoh,

The ways you might apply PVC in oncology depends on your application. Can you give a specific example of what you would like to do?

Kind regards,

Ben

madyankoh commented 7 years ago

Thank you for the reply.

When I want to apply PVC (for example MTC) on WB PET with a mask file, I received this error (attached file).

error

Thanks madyankoh

bathomas commented 7 years ago

Hi,

It looks like your PET and mask have different voxel sizes and different origins. Both images need to be in the same space. You need to resample one of them to match the other. I presume your PET voxels are 5.46x5.46x3.27mm and the mask voxels are 0.97x0.97x3.27mm? I would recommend upsampling the PET to match the mask. There are examples in ITK of how to resample images. Make sure you use linear interpolation during resampling if you are changing the PET.

Kind regards,

Ben

From: madyankoh notifications@github.com Reply-To: UCL/PETPVC reply@reply.github.com Date: Friday, 3 March 2017 at 21:24 To: UCL/PETPVC PETPVC@noreply.github.com Cc: "Thomas, Ben" b.a.thomas@ucl.ac.uk, Comment comment@noreply.github.com Subject: Re: [UCL/PETPVC] PVC in Oncology (#10)

Thank you for the reply.

When I want to apply PVC (for example MTC) on WB PET with a mask file, I received this error (attached file).

[rror]https://cloud.githubusercontent.com/assets/26072431/23569477/ba4cc936-0074-11e7-8f06-b9619f3f8f10.JPG

Thanks madyankoh

— You are receiving this because you commented. Reply to this email directly, view it on GitHubhttps://github.com/UCL/PETPVC/issues/10#issuecomment-284074063, or mute the threadhttps://github.com/notifications/unsubscribe-auth/AGX4abLIofXI-TowWP3gBI5AkmJQeznHks5riIURgaJpZM4MNpE3.

bathomas commented 7 years ago

Hi @madyankoh,

Did you manage to figure this out?

Kind regards,

Ben

madyankoh commented 7 years ago

Hi Dear Thomas Sorry for delay in response and thanks for your email. I applied PVC with STC, VC and RL methods on Oncolocal PET image but couldn't use other method while PET and mask image have same voxel size. Best wishes

On Jun 19, 2017 2:24 PM, "Ben Thomas" notifications@github.com wrote:

Hi @madyankoh https://github.com/madyankoh,

Did you manage to figure this out?

Kind regards,

Ben

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/UCL/PETPVC/issues/10#issuecomment-309393506, or mute the thread https://github.com/notifications/unsubscribe-auth/AY3Vb65EFPdd4yL-4Grd_h2mkNCno0Itks5sFkVigaJpZM4MNpE3 .

bathomas commented 7 years ago

Hi @madyankoh,

For the other methods the mask needs to be in 4D. Could this be the problem?

Kind regards,

Ben

madyankoh commented 7 years ago

Hi Dear Dr. Thomas Yes, I read your post how to make it but I couldn't make 4D mask. Thanks for responding Best wishes.

On Jul 26, 2017 12:34 PM, "Ben Thomas" notifications@github.com wrote:

Hi @madyankoh https://github.com/madyankoh,

For the other methods the mask needs to be in 4D. Could this be the problem?

Kind regards,

Ben

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/UCL/PETPVC/issues/10#issuecomment-317980132, or mute the thread https://github.com/notifications/unsubscribe-auth/AY3Vb3HAiXKUg8DgUtIdX4zjYUydPJISks5sRvMdgaJpZM4MNpE3 .