From 877c25497a822b8d51f95f3313cd1b68843ed24a Mon Sep 17 00:00:00 2001 From: Xiao Gui <xgui3783@gmail.com> Date: Fri, 29 Jul 2022 09:06:39 +0200 Subject: [PATCH] feat: add new v1 high res volumes --- parcellations/julichbrain_v2_9_0.json | 43 +--------- regions/human_jba29_hoc1_left.json | 117 ++++++++++++++++++++++++++ regions/human_jba29_hoc1_right.json | 106 +++++++++++++++++++++++ 3 files changed, 224 insertions(+), 42 deletions(-) create mode 100644 regions/human_jba29_hoc1_left.json create mode 100644 regions/human_jba29_hoc1_right.json diff --git a/parcellations/julichbrain_v2_9_0.json b/parcellations/julichbrain_v2_9_0.json index cf893954..afd43c2a 100644 --- a/parcellations/julichbrain_v2_9_0.json +++ b/parcellations/julichbrain_v2_9_0.json @@ -5969,48 +5969,7 @@ 132, 147 ], - "datasets": [ - { - "@type": "fzj/tmp/volume_type/v0.0.1", - "@id": "fzj/tmp/volume_type/v0.0.1/v1", - "name": "Julich Brain v2.5 v1 detailed map volSrc big brain ng precomp lh", - "volume_type": "neuroglancer/precomputed", - "url": "https://neuroglancer.humanbrainproject.eu/precomputed/BigBrainRelease.2015/2019_05_01_v1", - "detail": { - "neuroglancer/precomputed": { - "labelIndex": 1, - "transform": [ - [ - 1, - 0, - 0, - -70677184 - ], - [ - 0, - 1, - 0, - -69390000 - ], - [ - 0, - 0, - 1, - -58788284 - ], - [ - 0, - 0, - 0, - 1 - ] - ] - } - }, - "space_id": "minds/core/referencespace/v1.0.0/a1655b99-82f1-420f-a3c2-fe80fd4c8588", - "map_type": "labelled" - } - ], + "datasets": [], "children": [ { "name": "Area hOc1 (V1, 17, CalcS) - left hemisphere", diff --git a/regions/human_jba29_hoc1_left.json b/regions/human_jba29_hoc1_left.json new file mode 100644 index 00000000..6beb5b9e --- /dev/null +++ b/regions/human_jba29_hoc1_left.json @@ -0,0 +1,117 @@ +{ + "@id": "siibra/region/v0.0.1/human_jba29_hoc1_left", + "@type": "siibra/region/v0.0.1", + "name": "Area hOc1 (V1, 17, CalcS) - left hemisphere", + "rgb": [ + 190, + 132, + 147 + ], + "parcellation": { + "@id": "minds/core/parcellationatlas/v1.0.0/94c1125b-b87e-45e4-901c-00daee7f2579-290" + }, + "parent": [{ + "@id": "siibra/region/v0.0.1/human_jba29_hoc1", + "name": "Area hOc1 (V1, 17, CalcS)" + }], + "datasets": [ + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/human_jba29_hoc1_left_bigbrain", + "name": "Julich Brain v2.9 v1 detailed map volSrc big brain ng precomp lh", + "url": "https://neuroglancer-dev.humanbrainproject.eu/precomputed/BigBrainRelease.2015/2022_04_27_hemisplit/labelpropagation/v1/left", + "detail": { + "neuroglancer/precomputed": { + "labelIndex": 1, + "transform": [[1.0, 0.0, 0.0, -32788851.0], [0.0, 1.0, 0.0, -69490000.0], [0.0, 0.0, 1.0, -13279951.0], [0.0, 0.0, 0.0, 1.0]] + } + }, + "space_id": "minds/core/referencespace/v1.0.0/a1655b99-82f1-420f-a3c2-fe80fd4c8588", + "space": { + "@id": "minds/core/referencespace/v1.0.0/a1655b99-82f1-420f-a3c2-fe80fd4c8588", + "name": "Big Brain (Histology)" + }, + "volume_type": "neuroglancer/precomputed", + "map_type": "labelled" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/Area-hOc1-lh-colin", + "name": "Probabilistic map of Area hOc1 (V1, 17, CalcS)", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210616-julichbrain-v2.9.0-complete-mpm/PMs/Area-hOc1/4.2/Area-hOc1_l_N10_nlin2Stdcolin27_4.2_publicP_026bcbe494dc4bfe702f2b1cc927a7c1.nii.gz", + "space_id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "space": { + "@id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "name": "MNI Colin 27" + }, + "detail": { + "nii": { + "labelIndex": 8 + } + }, + "volume_type": "nii", + "map_type": "continuous" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/Area-hOc1-lh-mni152", + "name": "Probabilistic map of Area hOc1 (V1, 17, CalcS)", + "volume_type": "nii", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210616-julichbrain-v2.9.0-complete-mpm/PMs/Area-hOc1/4.2/Area-hOc1_l_N10_nlin2ICBM152asym2009c_4.2_publicP_026bcbe494dc4bfe702f2b1cc927a7c1.nii.gz", + "space_id": "minds/core/referencespace/v1.0.0/dafcffc5-4826-4bf1-8ff6-46b8a31ff8e2", + "space": { + "@id": "minds/core/referencespace/v1.0.0/dafcffc5-4826-4bf1-8ff6-46b8a31ff8e2", + "name": "MNI 152 ICBM 2009c Nonlinear Asymmetric" + }, + "detail": { + "nii": { + "labelIndex": 8 + } + }, + "map_type": "continuous" + }, + { + "@type": "minds/core/dataset/v1.0.0", + "kgSchema": "minds/core/dataset/v1.0.0", + "kgId": "5c669b77-c981-424a-858d-fe9f527dbc07" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/julichbrain-colin27-lh-precomputed", + "name": "colin27-lh-precomputed", + "volume_type": "neuroglancer/precomputed", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210616-julichbrain-v2.9.0-complete-mpm/precomputed/GapMapPublicMPMAtlas_l_N10_nlin2StdColin27_29_publicDOI_7f7bae194464eb71431c9916614d5f89", + "detail": { + "neuroglancer/precomputed": { + "labelIndex": 8, + "transform": [[1,0,0,-128500000],[0,1,0,-148500000],[0,0,1,-110500000],[0,0,0,1]] + } + }, + "space_id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "space": { + "@id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "name": "MNI Colin 27" + }, + "map_type": "labelled" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/julichbrain-mni152-lh-precomputed", + "name": "mni152-lh-precomputed", + "volume_type": "neuroglancer/precomputed", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210616-julichbrain-v2.9.0-complete-mpm/precomputed/GapMapPublicMPMAtlas_l_N10_nlin2StdICBM152asym2009c_29_publicDOI_77fea6ffe6f914b6d98fe88e85ff5b1b", + "detail": { + "neuroglancer/precomputed": { + "labelIndex": 8, + "transform": [[1,0,0,-96500000],[0,1,0,-132500000],[0,0,1,-78500000],[0,0,0,1]] + } + }, + "space_id": "minds/core/referencespace/v1.0.0/dafcffc5-4826-4bf1-8ff6-46b8a31ff8e2", + "space": { + "@id": "minds/core/referencespace/v1.0.0/dafcffc5-4826-4bf1-8ff6-46b8a31ff8e2", + "name": "MNI 152 ICBM 2009c Nonlinear Asymmetric" + }, + "map_type": "labelled" + } + ] +} diff --git a/regions/human_jba29_hoc1_right.json b/regions/human_jba29_hoc1_right.json new file mode 100644 index 00000000..67f1e81d --- /dev/null +++ b/regions/human_jba29_hoc1_right.json @@ -0,0 +1,106 @@ +{ + "@id": "siibra/region/v0.0.1/human_jba29_hoc1_right", + "@type": "siibra/region/v0.0.1", + "name": "Area hOc1 (V1, 17, CalcS) - right hemisphere", + "rgb": [ + 190, + 132, + 147 + ], + "parcellation": { + "@id": "minds/core/parcellationatlas/v1.0.0/94c1125b-b87e-45e4-901c-00daee7f2579-290" + }, + "parent": [{ + "@id": "siibra/region/v0.0.1/human_jba29_hoc1", + "name": "Area hOc1 (V1, 17, CalcS)" + }], + "datasets": [ + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/human_jba29_hoc1_right_bigbrain", + "name": "Julich Brain v2.9 v1 detailed map volSrc big brain ng precomp rh", + "url": "https://neuroglancer-dev.humanbrainproject.eu/precomputed/BigBrainRelease.2015/2022_04_27_hemisplit/labelpropagation/v1/right", + "detail": { + "neuroglancer/precomputed": { + "labelIndex": 1, + "transform": [[1.0, 0.0, 0.0, 1310649.0], [0.0, 1.0, 0.0, -68290000.0], [0.0, 0.0, 1.0, -9639284.0], [0.0, 0.0, 0.0, 1.0]] + } + }, + "space_id": "minds/core/referencespace/v1.0.0/a1655b99-82f1-420f-a3c2-fe80fd4c8588", + "space": { + "@id": "minds/core/referencespace/v1.0.0/a1655b99-82f1-420f-a3c2-fe80fd4c8588", + "name": "Big Brain (Histology)" + }, + "volume_type": "neuroglancer/precomputed", + "map_type": "labelled" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/julichbrain-colin27-rh-nii", + "name": "colin27-rh-nii", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210714-julichbrain_v290_correctaffine/hbp-d000007_julichbrain-cytoatlas_dev/MPMs/29.0/GapMapPublicMPMAtlas_r_N10_nlin2StdColin27_29_publicDOI_883290e4569b289d35e78decdbc5deb7.nii.gz", + "space_id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "space": { + "@id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "name": "MNI Colin 27" + }, + "detail": { + "nii": { + "labelIndex": 8 + } + }, + "volume_type": "nii", + "map_type": "labelled" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/Area-hOc1-rh-colin", + "name": "Probabilistic map of Area hOc1 (V1, 17, CalcS)", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210616-julichbrain-v2.9.0-complete-mpm/PMs/Area-hOc1/4.2/Area-hOc1_r_N10_nlin2Stdcolin27_4.2_publicP_d8d7a22f9ea3b0fbd6f983c15697d834.nii.gz", + "space_id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "space": { + "@id": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992", + "name": "MNI Colin 27" + }, + "volume_type": "nii", + "map_type": "continuous" + }, + { + "@type": "fzj/tmp/volume_type/v0.0.1", + "@id": "fzj/tmp/volume_type/v0.0.1/julichbrain-mni152-rh-precomputed", + "name": "mni152-rh-precomputed", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/data-repo-ng-bot/20210616-julichbrain-v2.9.0-complete-mpm/precomputed/GapMapPublicMPMAtlas_r_N10_nlin2StdICBM152asym2009c_29_publicDOI_2b6e644a161af7477fb4328bcd490756", + 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