From b6a763accc84961d1a352a823cc9099a1d1a5327 Mon Sep 17 00:00:00 2001 From: Alex Date: Wed, 1 Sep 2021 14:55:14 -0700 Subject: [PATCH 1/3] add ScanRAS as an accepted coordinate frame for ieeg --- src/99-appendices/08-coordinate-systems.md | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/src/99-appendices/08-coordinate-systems.md b/src/99-appendices/08-coordinate-systems.md index 4185f2fc10..8724cd70d6 100644 --- a/src/99-appendices/08-coordinate-systems.md +++ b/src/99-appendices/08-coordinate-systems.md @@ -172,6 +172,12 @@ Restricted keywords for the `CoordinateSystem` field in the [ACPC site](https://www.fieldtriptoolbox.org/faq/acpc/) on the FieldTrip toolbox wiki. +- `ScanRAS`: The origin of the coordinate system is the center of the + gradient coil for the corresponding T1w image of the subject, and the x-axis + increases left to right, the y-axis increases posterior to to anterior and + the z-axis increases inferior to superior. For more information see the + [Nipy Documentation](https://nipy.org/nibabel/coordinate_systems.html). + - Any keyword from the list of [Standard template identifiers](#standard-template-identifiers) From 7efd9f759876a47e9d190816e30db17f4863fec2 Mon Sep 17 00:00:00 2001 From: Alex Date: Wed, 1 Sep 2021 15:17:49 -0700 Subject: [PATCH 2/3] recommendation for ACPC --- src/99-appendices/08-coordinate-systems.md | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/src/99-appendices/08-coordinate-systems.md b/src/99-appendices/08-coordinate-systems.md index 8724cd70d6..1b589da4d0 100644 --- a/src/99-appendices/08-coordinate-systems.md +++ b/src/99-appendices/08-coordinate-systems.md @@ -176,7 +176,10 @@ Restricted keywords for the `CoordinateSystem` field in the gradient coil for the corresponding T1w image of the subject, and the x-axis increases left to right, the y-axis increases posterior to to anterior and the z-axis increases inferior to superior. For more information see the - [Nipy Documentation](https://nipy.org/nibabel/coordinate_systems.html). + [Nipy Documentation](https://nipy.org/nibabel/coordinate_systems.html). It is + strongly encouraged to align the subject's T1w to ACPC so that the `ACPC` + coordinate system can be used. If the subject's T1w in the BIDS dataset + is not aligned to ACPC, `ScanRAS` should be used. - Any keyword from the list of [Standard template identifiers](#standard-template-identifiers) From 244b490fc7d04e03e419aed4b3ae044346274cfb Mon Sep 17 00:00:00 2001 From: Alex Date: Thu, 9 Sep 2021 09:36:23 -0700 Subject: [PATCH 3/3] Taylor comment --- src/schema/metadata/_iEEGCoordSys.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/src/schema/metadata/_iEEGCoordSys.yaml b/src/schema/metadata/_iEEGCoordSys.yaml index 668d89dfdd..99d3d82d8c 100644 --- a/src/schema/metadata/_iEEGCoordSys.yaml +++ b/src/schema/metadata/_iEEGCoordSys.yaml @@ -3,4 +3,5 @@ type: string enum: - Pixels - ACPC + - ScanRAS - Other