Field Map Masks for Brain + C-Spine Images

[Govish]

Hi guys!
I took a peek at the masks you sent over, and it looks like they include just the brain.
Would it be possible to get masks that include all anatomy requiring shimming (i.e. brain + c-spine, etc.)?

Thanks!
-Ishaan

[CharlesPageot]

Hi @Govish! Sorry for the wait.
We have the whole spine segmented for the dataset. I will generate the masks.
Just to be sure, you want a single mask for each of the subject that include brain + spine ?

[Govish]

Hi Charles!
Sorry for the radio silence on my end! I just got a chance to go through the masks you sent that included the spine, and they're a lot closer to what we're looking for. However, it looks like they include the whole spine. Would it be possible to get masks that just include the brain + C-spine (C1-C7)?

Thanks for your continued help and support!
-Ishaan

[Govish]

^ In chatting with my PI's actually, would getting all segmented tissue maps be possible? (e.g. having separate masks for brain, all vertebrae of the spine, lungs, etc.)

[CharlesPageot]

Yeah, for sure, we have the combined label maps. The vertebrae are currently all under the same class (same thing for the discs). Do you need them to be all separate (i.e. one label for C3, another one for C4 etc) ?

[Govish]

That would be great! Apologies for the late reply!

[jcohenadad]

@Govish is this issue solved?

[Govish]

Not yet (at least I don’t have individual tissue maps yet)—I may have missed an email/message however.
Thanks for all the help!

[jcohenadad]

Will be addressed in #1 once we share the source data (ie: mask of each tissue)