ODF as Spherical Hamonic representation

[skpathak]

Dear PHARDI experts,

Thanks for code/software. I have a couple of suggestions to improve upon.

1. I think having ODF as represented as SH coefficients with nice to use it in other software packages like MrTRIX. We can further use this reconstruction for fiber tracking etc.
2. Maybe provide a peak finding method for the ODF estimated from phardi.
3. Provide a template program if anyone else wants to contribute their method. Maybe a simple matrix multiplication to estimate ODF.

Thanks,

Sudhir

[yasseraleman]

Hi Sudhir,

Thanks for your suggestions.

1. Mrtrix have a function called amp2sh that allows for converting from amplitude image to sh coefficients. I have tested with our ODFs and it works perfectly. We are discussing about including this into phardi.
2. We are implementing the peak extraction and it will be uploaded very soon to the repository.
3. That will be great. The basic idea is to create a solid toolbox for intravoxel fiber reconstruction.

Thanks again,
Yasser

[skpathak]

Thanks for the answer. I wanted to try amp2sh but need to convert Cartesian coordinate to spherical. There are different representation for theta and phi. How you do it? Do you use Matlab to convert first 724 points to theta and phi? Also odf values are 362. Is it reasonable to assume that 362 points corresponds to the first half of 724 points?

Thanks.
Sudhir

[javiergarcia]

Dear Sudhir,

We have added the scheme file as an optional parameter (-s) in the last commit.

Best

[yasseraleman]

Hi Sudhir,

Yes, the 362 scheme contains the first 362 directions of the 724 scheme. I have used matlab to convert the points coordinates from cartesian to spherical.

Best
Yasser