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Created parameters for rat and human #146

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merged 10 commits into from
Jun 9, 2021
Merged

Created parameters for rat and human #146

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a2b3c3d
Created parameters for rat and human
arti-sukasem Jun 3, 2021
c4b85be
added ILX to Geometric markers
arti-sukasem Jun 3, 2021
5407ecf
Fixed CylinderCentralPath since it crashed the whole body mesh
arti-sukasem Jun 3, 2021
24fb80f
reviewed change requests
arti-sukasem Jun 4, 2021
39f234d
Updated marker_brainstem_coordinates and exterior
arti-sukasem Jun 7, 2021
b079ae5
reviewed minor changes
arti-sukasem Jun 7, 2021
d98441b
annotated interface, updated parameters
arti-sukasem Jun 8, 2021
d806b01
smoothened side derivatives
arti-sukasem Jun 8, 2021
0990679
smoothened side derivatives
arti-sukasem Jun 8, 2021
45bf6e8
Reverted cylinderMesh.py and minor fixes
arti-sukasem Jun 9, 2021
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7 changes: 6 additions & 1 deletion src/scaffoldmaker/annotation/brainstem_terms.py
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Expand Up @@ -23,7 +23,12 @@
("brainstem dorsal midline pons-medulla junction", "ILX:0778148"),
("brainstem ventral midline pons-medulla junction", "ILX:0778149"),
("brainstem dorsal midline midbrain-pons junction", "ILX:0778150"),
("brainstem ventral midline midbrain-pons junction", "ILX:0778151")
("brainstem ventral midline midbrain-pons junction", "ILX:0778151"),

# Surface
("brainstem exterior", "UBERON:0002298", "ILX:0101444"),
("midbrain exterior", "UBERON:0001891", "ILX:0106935"),
("medulla oblongata exterior", "UBERON:0001896", "ILX:0106736")
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]

def get_brainstem_term(name : str):
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