I have 44 averages and want to exclude the first 2 and last 2 that are water peaks. Can I do it in Osprey ?
Thanks a lot
I assume you’re talking about the CMRR sequence that acquires water references before and after the metabolite data. Short answer, no, you can’t just simply remove them, but you also wouldn’t want to. We just need to accommodate this sequence properly in the TWIX loader. See the other thread to continue the conversation there.
You are absolutely right :))
I will work on the file you mentioned.
Still sometimes it is also nice to remove one acquisition that is not good. It is what I was used to do on animal data.
Yes, identification and down-weighting of corrupted transients already happens in OspreyProcess using weighted (robust) spectral registration.
That is great Thank you very much
I have trouble with the file. Could I send you the MRS acquisition ? and if so how ?
Thanks a lot
Ideally, you upload a phantom scan to any kind of file hosting service - we don’t have enough disk space on the forum cloud to offer that kind of sharing.
Hi everyone,
I’m currently working with an fMRS sequence and would appreciate advice on selecting a subset of spectra. We have the timing information indicating which part of the data corresponds to a resting condition, and which part reflects our task.
Is there a straightforward way to remove individual spectra from the dataset based on this timing information? Specifically, I’d like to analyse the dataset twice: once for the resting-state condition and once for the task condition.
I came across this thread while searching for solutions and thought it would be a great place to ask for advice. Is this possible and if so, what would be the best way to go about it?
Thank you very much in advance!
Kiana
Hi Kiana,
fMRS analysis is currently not really implemented in Osprey itself (we have plans, but it’ll still take a while). I have cooked up a (not particularly pretty, but working) pipeline for @eporges a while ago that basically uses FID-A functions and LCModel to do what you want to do. I’m happy to share that - feel free to shoot me an e-mail.
You can also look into FSL-MRS, which has quite much more mature fMRS capabilities than Osprey at this point.
Cheers,
Georg