Applying the harmonization to other diffusion weighted images

[JoaoPaulo100]

Dear Experts,

Thanks for developing such a great tool. We were wondering if this approach could also be used for different maps (Axial diffusivity, Radial diffusivity, etc). I saw FA, MD, and GFA here and in the paper. Is there a way to also get these other maps harmonized?

Thanks! João

[suheyla2]

Dear Joao,

Our harmonization method is directly applied to the diffusion MRI data itself. Any model fitting can be applied after harmonization. After harmonizing diffusion MRI data, you can create any maps you want.

I hope this helps.

Best, Suheyla

On 9 Mar 2021, at 17:46, JoaoPaulo100 @.***> wrote:



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Dear Experts,

Thanks for developing such a great tool. We were wondering if this approach could also be used for different maps (Axial diffusivity, Radial diffusivity, etc). I saw FA, MD, and GFA here and in the paper. Is there a way to also get these other maps harmonized?

Thanks! João

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[JoaoPaulo100]

Dear Suheyla,

Thank you so much for your response! I probably missed something in the instructions.

In the test data provided, and using the 'C" participant as reference, this would be the harmonized dMRI image, correct? /dMRIharmonization/lib/tests/connectom_prisma/prisma/C/harmonized_dwi_C_prisma_st_b1200_bmapped_resampled.nii.gz

Thanks! João Paulo

[suheyla2]

Yes, it is the harmonized dMRI data.

Best, Suheyla

On 9 Mar 2021, at 18:56, JoaoPaulo100 @.***> wrote:



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Dear Suheyla,

Thank you so much for your response! I probably missed something in the instructions.

In the test data provided, and using the 'C" participant as reference, this would be the harmonized dMRI image, correct? /dMRIharmonization/lib/tests/connectom_prisma/prisma/C/harmonized_dwi_C_prisma_st_b1200_bmapped_resampled.nii.gz

Thanks! João Paulo

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[JoaoPaulo100]

Thanks!

[JoaoPaulo100]

I'm able to run the harmonization for our data. However, the harmonized image (in blue) is missing some regions (as shown in the picture) in comparison to the original dwi (in grey). Is there a way to avoid these cuts during the harmonization?

Thanks! João Paulo

[tashrifbillah]

@JoaoPaulo100 , do your input masks have holes and islands in them?

Take a look at the comments above this comment where I helped someone with a similar issue.

[JoaoPaulo100]

No, they don't. However, I'll check all the inputs again.

Thank you so much for linking the comment! I'll look into this.

[tashrifbillah]

Hi @JoaoPaulo100 , closing this for now. Feel free to reopen if needed.