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Write a getting started with QuSpin OPM data #807

Open robertoostenveld opened 1 month ago

robertoostenveld commented 1 month ago

I am now discussing this with @dbobela406 and details will follow here. Note that this is not only about writing some documentation, but the supporting code should of course also be implemented.

robertoostenveld commented 1 month ago

See also https://github.com/mne-tools/mne-python/issues/8671

dbobela406 commented 1 month ago

Hi Robert et al.

Dave Bobela here from QuSpin. To kick things off on this thread, I'm uploading some example data from the QuSpin Neuro-1 system, so that users can understand the formatting, and begin writing importer scripts for your application. This should cover the use case of saving data directly from QuSpin user interface.

I'm also uploading a pdf file that documents the data formatting--please refer to this for a general overview. If I've forgotten something, or if you need clarification, please reach out.

Briefly, the QuSpin N1 user interface generates two files when saving data: one file that contains sensor measurement data (a labview ".lvm" file), and one file containing sensor and system level information. Here are the example files (note, I had to attach a .txt extension to the .lvm file to satisfy GitHub's requirements. Remove this extension):

QuSpin Example N1 Dataset_10-14-24_array1.lvm.txt

QuSpin Example N1 Dataset_10-14-24_array1_calibrations.txt

QuSpin_Data_File_Format_Description.pdf

Mettphysik commented 3 weeks ago

To kick things off on this thread, I'm uploading some example data from the QuSpin Neuro-1 system, so that users can understand the formatting, and begin writing importer scripts for your application. This should cover the use case of saving data directly from QuSpin user interface.

Is it possible that the .lvm file is corrupted? I am using lvm-read (https://pypi.org/project/lvm-read/) which works fine with my own Neuro-1 data, but not with the provided file. It looks like there are 5 data points for the channels X1 to Y62 but only 4 data points for the remaining channels.

I'm not directly working on this issue, but I guess this might still be of interest here.

dbobela406 commented 3 weeks ago

Thanks Mettphysik for pointing this out and indeed you were correct about the file. I updated the links from my September 26th post, above, with valid data that can be opened using lvm-read (https://pypi.org/project/lvm-read/).

robertoostenveld commented 3 weeks ago

Dear Dave,

Sorry for not following this up as planned. At the moment I am sick at home and not able to work on this. I hope to be back to work soon and will then pick this up again.

best Robert

dbobela406 commented 3 weeks ago

Hi Robert,

No worries at all. Hope it’s not serious , and that a full recovery is on the horizon!

Best regards, Dave

David C. Bobela Physicist, QuSpin Inc., 331 South 104th Street, Suite 130 Louisville, CO 80027 Ph: 720-982-8807 Email: @. @.> Website: http://www.quspin.com/

On Tue, Oct 15, 2024 at 2:37 AM Robert Oostenveld @.***> wrote:

Dear Dave,

Sorry for not following this up as planned. At the moment I am sick at home and not able to work on this. I hope to be back to work soon and will then pick this up again.

best Robert

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