[BEP001] acq- vs part- keys

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Kirstie Whitaker

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Jul 13, 2018, 12:32:05 PM7/13/18
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Hi BIDS community & BEP 001 devs,

There's a question that Michael Harms has added as a comment to the BEP001 proposal that I'd like to move forwards a decision on.

Here's a link to the comment but I've copied and pasted it here:

> Is the _part tag new to this extension? (I didn't find mention of it in the main spec). What does "part" stand for? Couldn't this be handled via the already existing _rec tag (e.g, _rec-magn and _rec-phase)?

Here's the template, copied from the BEP001 extension (link):

Template:

sub-<participant_label>/[ses-<session_label>/]

anat/

sub-<participant_label>[_ses-<session_label>][_acq-<label>][_rec-<label>][_fa-<index>][_inv-<index>][_echo-<index>][_part-<phase|mag>][_run-<index>]_<sequence_label>.nii[.gz]



Here's the description of the part- tag from the BEP001 proposal (link):

> The optional key [_part-<phase|mag>] allows for storing phase and magnitude images. In its absence the image is assumed to be magnitude.

And here's the decription of the rec- tag from the BIDS specification (link):

> Similarly the OPTIONAL “rec-<label>” key/value can be used to distinguish different reconstruction algorithms (for example ones using motion correction)

Any thoughts on whether we need part- or whether rec- would suffice?

It looks like we definitely would need to update the definition of rec- in the main BIDS spec to be a little clearer about what it means, but I don't have strong feelings either way!

Kx

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Kirstie Whitaker, PhD

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Research Associate, University of Cambridge

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Chris Gorgolewski

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Jul 13, 2018, 11:07:13 PM7/13/18
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One thing to consider here is that values of rec are currently free form and proposed part would be controlled vocabulary with two possible values "phase" and "mag". Thus I think in this case part makes more sense. 

Best,
Chris


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Harms, Michael

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Jul 17, 2018, 11:33:11 AM7/17/18
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Hi,

What exactly is “part” intended to convey?  To me, “phase” and “mag” are different types of recons, and thus most naturally related to the “rec” tag.

 

Cheers,

-MH

 

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Michael Harms, Ph.D.

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Washington University School of Medicine

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660 South Euclid Ave.                        Tel: 314-747-6173

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Pamela LaMontagne

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Jul 18, 2018, 11:08:31 AM7/18/18
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For SWI the mag and phase are different parts of input to the SWI image which can be reconstructed on the scanner or in separate software. They are not actually reconstructions in this case

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Harms, Michael

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Jul 18, 2018, 11:11:54 AM7/18/18
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But they *could* in principle be recons on the scanner.  My 2c is that a proliferation of tags specific to each MR modality is not conducive to harmony across the specification as a whole.

 

Cheers,

-MH

 

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Michael Harms, Ph.D.

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Associate Professor of Psychiatry

Washington University School of Medicine

Department of Psychiatry, Box 8134

660 South Euclid Ave.                        Tel: 314-747-6173

St. Louis, MO  63110                          Email: mha...@wustl.edu

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