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physiopy / phys2bids

Python3 library to format physiological files in BIDS. At the moment, it supports Acqknowledge and Labchart. BrainHack participants, check the issues with the BrainHack labels!
https://phys2bids.readthedocs.io
Apache License 2.0
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Integration of Siemens Product Sequence Filetypes such as ".puls" #412

Open TomW92 opened 3 years ago

TomW92 commented 3 years ago

Hi, the outputs of manual physiological recordings with Siemens are not compatible with phys2bids.

Detailed Description

Manual physiological recording on Siemens Scanner may produce .puls, .ecg, etc. files. These cannot be read by phy2bids.

Context / Motivation

We collected respiratory and pulse data and would like to incorporate it into the fMRI analysis. Example data is attached.

Anyone whose physiological data is in the sam format should be able to benefit from this.

Possible Implementation

physio_example.zip

smoia commented 3 years ago

Hello @TomW92 ! Thank you for opening an issue and for the data! We will work on implementing it, and hopefully it will be done by the end of the summer - be patient, we're a handful of volunteers and we're busy bees already outside of phys2bids!

@physiopy/all, anyone interested in tackling this?

rmarkello commented 3 years ago

I had previously written some (very rough) code to extract and do some light formatting on time series from Siemens physio files. If it'd be helpful for whoever ends up working on this they can absolutely feel free to use that code as a starting point.

Good luck! :muscle:

TomW92 commented 3 years ago

Hello @smoia, thanks a lot!

Yes, of course I didn't expect otherwise.

smoia commented 2 years ago

Hello @TomW92 ! Would you have data to share so that we can test this new feature?

TomW92 commented 2 years ago

Hi @smoia, sorry for the delayed response, I wasn't notified for some reason. Do you mean BOLD data or just additional data to the example I uploaded when opening this issue?