From 3b348b2c712f56e261943e7330b0348f95827342 Mon Sep 17 00:00:00 2001 From: Ahmet Nihat Simsek Date: Thu, 12 Dec 2024 22:31:20 +0100 Subject: [PATCH] Manually correct julich brain <= v3.0.3 region tree issues based on 3.1 --- parcellations/julichbrain_v1_18.json | 72 +---------- parcellations/julichbrain_v2_9_0.json | 58 +-------- parcellations/julichbrain_v3_0_3.json | 169 ++++++++++++-------------- 3 files changed, 79 insertions(+), 220 deletions(-) diff --git a/parcellations/julichbrain_v1_18.json b/parcellations/julichbrain_v1_18.json index 4dbd919a..701f3eeb 100644 --- a/parcellations/julichbrain_v1_18.json +++ b/parcellations/julichbrain_v1_18.json @@ -22,7 +22,7 @@ "name": "basal forebrain", "children": [ { - "name": "magnocellular group within septum", + "name": "magnocellular group", "children": [ { "name": "Ch 123 (Basal Forebrain)", @@ -70,31 +70,6 @@ "rgb": "#74F30C" } ] - }, - { - "name": "magnocellular group within horizontal limb of diagnoal band", - "children": [ - { - "name": "Ch 123 (Basal Forebrain)", - "children": [ - { - "name": "Ch 123 (Basal Forebrain) - left hemisphere", - "rgb": "#7CE9A7", - "ebrains": {} - }, - { - "name": "Ch 123 (Basal Forebrain) - right hemisphere", - "rgb": "#7CE9A7", - "ebrains": {} - } - ], - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "bb111a95-e04c-4987-8254-4af4ed8b0022", - "openminds/ParcellationEntity": "e6e94b7b-463c-487f-a801-723850c5997d" - }, - "rgb": "#7CE9A7" - } - ] } ] }, @@ -238,26 +213,6 @@ "openminds/ParcellationEntity": "2976e533-2d73-42a1-918b-bc4ae4f16243" }, "rgb": "#5904BE" - }, - { - "name": "CM (Amygdala)", - "children": [ - { - "name": "CM (Amygdala) - left hemisphere", - "rgb": "#0978DC", - "ebrains": {} - }, - { - "name": "CM (Amygdala) - right hemisphere", - "rgb": "#0978DC", - "ebrains": {} - } - ], - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "7aba8aef-6430-4fa7-ab54-8ecac558faed", - "openminds/ParcellationEntity": "2976e533-2d73-42a1-918b-bc4ae4f16243" - }, - "rgb": "#0978DC" } ] } @@ -2447,31 +2402,6 @@ "rgb": "#C8640A" } ] - }, - { - "name": "emboliform nucleus", - "children": [ - { - "name": "Interposed Nucleus (Cerebellum)", - "children": [ - { - "name": "Interposed Nucleus (Cerebellum) - left hemisphere", - "rgb": "#AA1D0A", - "ebrains": {} - }, - { - "name": "Interposed Nucleus (Cerebellum) - right hemisphere", - "rgb": "#AA1D0A", - "ebrains": {} - } - ], - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "85e7bb13-4b73-4f6f-8222-3adb7b800788", - "openminds/ParcellationEntity": "d4d42283-a9e7-40b5-899d-3d2b220c01cf" - }, - "rgb": "#AA1D0A" - } - ] } ] } diff --git a/parcellations/julichbrain_v2_9_0.json b/parcellations/julichbrain_v2_9_0.json index fc42f95b..933c7529 100644 --- a/parcellations/julichbrain_v2_9_0.json +++ b/parcellations/julichbrain_v2_9_0.json @@ -22,7 +22,7 @@ "name": "basal forebrain", "children": [ { - "name": "magnocellular group within septum", + "name": "magnocellular group", "children": [ { "name": "Ch 123 (Basal Forebrain)", @@ -76,34 +76,6 @@ } } ] - }, - { - "name": "magnocellular group within horizontal limb of diagnoal band", - "children": [ - { - "name": "Ch 123 (Basal Forebrain)", - "children": [ - { - "name": "Ch 123 (Basal Forebrain) - left hemisphere", - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "bb111a95-e04c-4987-8254-4af4ed8b0022" - }, - "rgb": "#9FE770" - }, - { - "name": "Ch 123 (Basal Forebrain) - right hemisphere", - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "bb111a95-e04c-4987-8254-4af4ed8b0022" - }, - "rgb": "#9FE770" - } - ], - "rgb": "#9FE770", - "ebrains": { - "openminds/ParcellationEntity": "e6e94b7b-463c-487f-a801-723850c5997d" - } - } - ] } ] }, @@ -3747,34 +3719,6 @@ } } ] - }, - { - "name": "emboliform nucleus", - "children": [ - { - "name": "Interposed Nucleus (Cerebellum)", - "children": [ - { - "name": "Interposed Nucleus (Cerebellum) - left hemisphere", - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "85e7bb13-4b73-4f6f-8222-3adb7b800788" - }, - "rgb": "#59C943" - }, - { - "name": "Interposed Nucleus (Cerebellum) - right hemisphere", - "ebrains": { - "minds/core/parcellationregion/v1.0.0": "85e7bb13-4b73-4f6f-8222-3adb7b800788" - }, - "rgb": "#59C943" - } - ], - "rgb": "#59C943", - "ebrains": { - "openminds/ParcellationEntity": "d4d42283-a9e7-40b5-899d-3d2b220c01cf" - } - } - ] } ] } diff --git a/parcellations/julichbrain_v3_0_3.json b/parcellations/julichbrain_v3_0_3.json index 444b0e92..b5f75f5e 100644 --- a/parcellations/julichbrain_v3_0_3.json +++ b/parcellations/julichbrain_v3_0_3.json @@ -2518,35 +2518,23 @@ "name": "Temporal-to-Parietal", "children": [ { - "name": "Temporal-to-Parietal", + "name": "Temporal-to-Parietal (GapMap)", + "rgb": "#4C5AA1", "children": [ { - "name": "Temporal-to-Parietal (GapMap)", + "name": "Temporal-to-Parietal (GapMap) - right hemisphere", + "rgb": "#4C5AA1", + "ebrains": { + "openminds/ParcellationEntityVersion": [ + "81c5d923-7b70-416d-83de-5343a3cbcd78", + "970ad5fc-f0ad-49ab-82c6-aa72d6b068fa", + "09212642-98a7-41c2-a558-8e120394ee0b" + ] + } + }, + { + "name": "Temporal-to-Parietal (GapMap) - left hemisphere", "rgb": "#4C5AA1", - "children": [ - { - "name": "Temporal-to-Parietal (GapMap) - right hemisphere", - "rgb": "#4C5AA1", - "ebrains": { - "openminds/ParcellationEntityVersion": [ - "81c5d923-7b70-416d-83de-5343a3cbcd78", - "970ad5fc-f0ad-49ab-82c6-aa72d6b068fa", - "09212642-98a7-41c2-a558-8e120394ee0b" - ] - } - }, - { - "name": "Temporal-to-Parietal (GapMap) - left hemisphere", - "rgb": "#4C5AA1", - "ebrains": { - "openminds/ParcellationEntityVersion": [ - "81c5d923-7b70-416d-83de-5343a3cbcd78", - "970ad5fc-f0ad-49ab-82c6-aa72d6b068fa", - "09212642-98a7-41c2-a558-8e120394ee0b" - ] - } - } - ], "ebrains": { "openminds/ParcellationEntityVersion": [ "81c5d923-7b70-416d-83de-5343a3cbcd78", @@ -2555,7 +2543,14 @@ ] } } - ] + ], + "ebrains": { + "openminds/ParcellationEntityVersion": [ + "81c5d923-7b70-416d-83de-5343a3cbcd78", + "970ad5fc-f0ad-49ab-82c6-aa72d6b068fa", + "09212642-98a7-41c2-a558-8e120394ee0b" + ] + } } ] }, @@ -4871,35 +4866,23 @@ "name": "Frontal-to-Temporal", "children": [ { - "name": "Frontal-to-Temporal", + "name": "Frontal-to-Temporal-II (GapMap)", + "rgb": "#A1184A", "children": [ { - "name": "Frontal-to-Temporal-II (GapMap)", + "name": "Frontal-to-Temporal-II (GapMap) - right hemisphere", + "rgb": "#A1184A", + "ebrains": { + "openminds/ParcellationEntityVersion": [ + "de4fd8cf-0910-4208-8f0b-0ae00b741f00", + "390eb47c-a525-4061-847c-bd82ff993d28", + "18463f6c-469b-4ddb-ae0e-13a3025e8dfb" + ] + } + }, + { + "name": "Frontal-to-Temporal-II (GapMap) - left hemisphere", "rgb": "#A1184A", - "children": [ - { - "name": "Frontal-to-Temporal-II (GapMap) - right hemisphere", - "rgb": "#A1184A", - "ebrains": { - "openminds/ParcellationEntityVersion": [ - "de4fd8cf-0910-4208-8f0b-0ae00b741f00", - "390eb47c-a525-4061-847c-bd82ff993d28", - "18463f6c-469b-4ddb-ae0e-13a3025e8dfb" - ] - } - }, - { - "name": "Frontal-to-Temporal-II (GapMap) - left hemisphere", - "rgb": "#A1184A", - "ebrains": { - "openminds/ParcellationEntityVersion": [ - "de4fd8cf-0910-4208-8f0b-0ae00b741f00", - "390eb47c-a525-4061-847c-bd82ff993d28", - "18463f6c-469b-4ddb-ae0e-13a3025e8dfb" - ] - } - } - ], "ebrains": { "openminds/ParcellationEntityVersion": [ "de4fd8cf-0910-4208-8f0b-0ae00b741f00", @@ -4907,34 +4890,34 @@ "18463f6c-469b-4ddb-ae0e-13a3025e8dfb" ] } + } + ], + "ebrains": { + "openminds/ParcellationEntityVersion": [ + "de4fd8cf-0910-4208-8f0b-0ae00b741f00", + "390eb47c-a525-4061-847c-bd82ff993d28", + "18463f6c-469b-4ddb-ae0e-13a3025e8dfb" + ] + } + }, + { + "name": "Frontal-to-Temporal-I (GapMap)", + "rgb": "#407E64", + "children": [ + { + "name": "Frontal-to-Temporal-I (GapMap) - right hemisphere", + "rgb": "#407E64", + "ebrains": { + "openminds/ParcellationEntityVersion": [ + "9884bee8-9109-404c-963b-5ecab0faa92f", + "7f4b9059-ec66-48d6-9c0a-7ef2ab8ca8b5", + "4546964b-e90c-46db-959c-86023407f775" + ] + } }, { - "name": "Frontal-to-Temporal-I (GapMap)", + "name": "Frontal-to-Temporal-I (GapMap) - left hemisphere", "rgb": "#407E64", - "children": [ - { - "name": "Frontal-to-Temporal-I (GapMap) - right hemisphere", - "rgb": "#407E64", - "ebrains": { - "openminds/ParcellationEntityVersion": [ - "9884bee8-9109-404c-963b-5ecab0faa92f", - "7f4b9059-ec66-48d6-9c0a-7ef2ab8ca8b5", - "4546964b-e90c-46db-959c-86023407f775" - ] - } - }, - { - "name": "Frontal-to-Temporal-I (GapMap) - left hemisphere", - "rgb": "#407E64", - "ebrains": { - "openminds/ParcellationEntityVersion": [ - "9884bee8-9109-404c-963b-5ecab0faa92f", - "7f4b9059-ec66-48d6-9c0a-7ef2ab8ca8b5", - "4546964b-e90c-46db-959c-86023407f775" - ] - } - } - ], "ebrains": { "openminds/ParcellationEntityVersion": [ "9884bee8-9109-404c-963b-5ecab0faa92f", @@ -4943,7 +4926,14 @@ ] } } - ] + ], + "ebrains": { + "openminds/ParcellationEntityVersion": [ + "9884bee8-9109-404c-963b-5ecab0faa92f", + "7f4b9059-ec66-48d6-9c0a-7ef2ab8ca8b5", + "4546964b-e90c-46db-959c-86023407f775" + ] + } } ] }, @@ -4951,21 +4941,16 @@ "name": "Frontal-to-Occipital", "children": [ { - "name": "Frontal-to-Occipital", + "name": "Frontal-to-Occipital (GapMap)", + "rgb": "#68A15D", "children": [ { - "name": "Frontal-to-Occipital (GapMap)", - "rgb": "#68A15D", - "children": [ - { - "name": "Frontal-to-Occipital (GapMap) - right hemisphere", - "rgb": "#68A15D" - }, - { - "name": "Frontal-to-Occipital (GapMap) - left hemisphere", - "rgb": "#68A15D" - } - ] + "name": "Frontal-to-Occipital (GapMap) - right hemisphere", + "rgb": "#68A15D" + }, + { + "name": "Frontal-to-Occipital (GapMap) - left hemisphere", + "rgb": "#68A15D" } ] }