Josh Faskowitz

Hi! Thanks for your interest in this repo! For the AAL, I unfortunately do not have a mapping to the original labeling scheme, and it would be a bunch of...

Hi! Thanks again for the compliments and your interest in the tools! But unfortunately, the situation is the same as before... I don't have the bandwidth to assign the regions...

Hi @MatthieuJoulot Thanks for your interest in the maTT app! At the current moment, I don't have time / plans to add the AAL3 parcellation. The AAL that is part...

Actually, to run maTT1, all you need is the `lh` and `rh` `.annot` files. That's it -- the colortable and the LUT should be generated by the maTT1 scripts. Yes,...

To generate `gcs` files in the manner that I did previously for the atlases present here, you'll need need to go through many extra steps (like running the Mindboggle 101...

Hi! Ahh ya, the `.gcs` processes is a bit more involved. To learn how to do this, I recommend reading these pages: [cortical parcellation](https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation), and then [mris_ca_train](https://surfer.nmr.mgh.harvard.edu/fswiki/mris_ca_train) is the acutal...

yes that sounds correct to me! I used ~100 training subjects... but I think you can do ~30 and be fine. You might have to mess with the colortable a...

ya, you need to use the maTT_labelTrnsfr.sh to render an `.annot` file in each subject space. And this is the part of the process that is relevant to what I...

Ahhh but you know what I realized... does AAL3 even have an `.annot` file in FreeSurfer average space available? You'll need that, as input to the label transfer script

well... this is the problem. AAL3 appears to be a 'volumetric' atlas... but all the maTT tools are focused on surface data. So you'll have to get creative. I have...