Merge pull request #881 from bids-standard/bep031

[ENH] BEP031: Microscopy
bids-standard · Jan 18, 2022 · 6a60eb2 · 6a60eb2
2 parents 6405a2b + b0b144b
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Showing 20 changed files with 850 additions and 25 deletions.
diff --git a/README.md b/README.md
@@ -25,6 +25,7 @@ BIDS currently supports the following data modalities with more to come in the f
 - behavioral
 - physiological
 - PET
+- microscopy
 
 # Formatting your data with BIDS
 

diff --git a/mkdocs.yml b/mkdocs.yml
@@ -39,6 +39,7 @@ nav:
         - Behavioral experiments (with no neural recordings): 04-modality-specific-files/07-behavioral-experiments.md
         - Genetic Descriptor: 04-modality-specific-files/08-genetic-descriptor.md
         - Positron Emission Tomography: 04-modality-specific-files/09-positron-emission-tomography.md
+        - Microscopy: 04-modality-specific-files/10-microscopy.md
       - Derivatives:
         - BIDS Derivatives: 05-derivatives/01-introduction.md
         - Common data types and metadata: 05-derivatives/02-common-data-types.md

diff --git a/src/02-common-principles.md b/src/02-common-principles.md
@@ -56,6 +56,7 @@ misunderstanding we clarify them here.
     1.  `ieeg` (intracranial electroencephalography)
     1.  `beh` (behavioral)
     1.  `pet` (positron emission tomography)
+    1.  `micr` (microscopy)
 
     Data files are contained in a directory named for the data type.
     In raw datasets, the data type directory is nested inside subject and

diff --git a/src/04-modality-specific-files/01-magnetic-resonance-imaging-data.md b/src/04-modality-specific-files/01-magnetic-resonance-imaging-data.md
@@ -17,7 +17,7 @@ by Ben Inglis.
       "Manufacturer": ("RECOMMENDED", "Corresponds to DICOM Tag 0008, 0070 `Manufacturer`."),
       "ManufacturersModelName": ("RECOMMENDED", "Corresponds to DICOM Tag 0008, 1090 `Manufacturers Model Name`."),
       "DeviceSerialNumber": ("RECOMMENDED", "Corresponds to DICOM Tag 0018, 1000 `DeviceSerialNumber`."),
-      "StationName": "RECOMMENDED",
+      "StationName": ("RECOMMENDED", "Corresponds to DICOM Tag 0008, 1010 `Station Name`."),
       "SoftwareVersions": ("RECOMMENDED", "Corresponds to DICOM Tag 0018, 1020 `Software Versions`."),
       "HardcopyDeviceSoftwareVersion": "DEPRECATED",
       "MagneticFieldStrength": "RECOMMENDED, but REQUIRED for Arterial Spin Labeling",

diff --git a/src/04-modality-specific-files/09-positron-emission-tomography.md b/src/04-modality-specific-files/09-positron-emission-tomography.md
@@ -143,7 +143,7 @@ which we divide into several categories:
       "InstitutionName": ("RECOMMENDED", "Corresponds to DICOM Tag 0008, 0080 `InstitutionName`."),
       "InstitutionAddress": ("RECOMMENDED", "Corresponds to DICOM Tag 0008, 0081 `InstitutionAddress`."),
       "InstitutionalDepartmentName": ("RECOMMENDED", "Corresponds to DICOM Tag 0008, 1040 `Institutional Department Name`."),
-      "BodyPart": "RECOMMENDED",
+      "BodyPart": ("RECOMMENDED", "Corresponds to DICOM Tag 0018, 0015 `Body Part Examined`."),
    }
 ) }}