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added marker points for both human and mouse, updated mouse parameter… #138

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merged 5 commits into from
May 13, 2021
Merged

added marker points for both human and mouse, updated mouse parameter… #138

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87c34ba
added marker points for both human and mouse, updated mouse parameter…
arti-sukasem May 11, 2021
d39b243
added markers to dorsal and medial bases of lungs, updated parameters
arti-sukasem May 12, 2021
9c6a629
Fixed invalid meshes (folded and swept) and moved apex of right lung
arti-sukasem May 13, 2021
12e0735
removed print
arti-sukasem May 13, 2021
afe6923
updated parameters - right-handed arrangement
arti-sukasem May 13, 2021
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28 changes: 20 additions & 8 deletions src/scaffoldmaker/annotation/lung_terms.py
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Expand Up @@ -4,18 +4,30 @@

# convention: preferred name, preferred id, followed by any other ids and alternative names
lung_terms = [
("horizontal fissure of right lung", "None"),
("lung", "UBERON:0002048", "ILX:0726937"),
("apex of accessory lung", "None"),
("apex of left lung", "ILX:0778112"),
("apex of right lung", "ILX:0778113"),
("dorsal base of accessory lung", "None"),
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("dorsal base of left lung", "None"),
("dorsal base of right lung", "None"),
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("horizontal fissure of right lung", "ILX:0746327"),
("laterodorsal tip of middle lobe of right lung", "None"),
("left lung", "UBERON:0002168", "ILX:0733450"),
("oblique fissure of left lung", "None"),
("oblique fissure of right lung", "None"),
("lower lobe of left lung", "UBERON:0008953", "ILX:0735534"),
("lower lobe of right lung", "UBERON:0002171", "ILX:0725712"),
("lung", "UBERON:0002048", "ILX:0726937"),
("middle lobe of right lung", "UBERON:0002174", "ILX:0733737"),
("medial base of left lung", "None"),
("medial base of right lung", "None"),
("oblique fissure of left lung", "ILX:0778115"),
("oblique fissure of right lung", "ILX:0778114"),
("right lung", "UBERON:0002167", "ILX:0729582"),
("right lung accessory lobe", "UBERON:0004890", "ILX:0728696"),
("upper lobe of left lung", "UBERON:0008952", "ILX:0735339"),
("lower lobe of left lung", "UBERON:0008953", "ILX:0735534"),
("upper lobe of right lung", "UBERON:0002170", "ILX:0728821"),
("middle lobe of right lung", "UBERON:0002174", "ILX:0733737"),
("lower lobe of right lung", "UBERON:0002171", "ILX:0725712"),
("right lung accessory lobe", "UBERON:0004890", "ILX:0728696")
("ventral base of accessory lung", "None"),
("ventral base of left lung", "None"),
("ventral base of right lung", "None")
]

def get_lung_term(name : str):
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