siibra-configurations merge requestshttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests2023-11-08T21:07:46+01:00https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/128Add ftract connectivity2023-11-08T21:07:46+01:00Ahmet Nihat SimsekAdd ftract connectivityMatch connectivity class names and modalities. Use `files_indexed_by` to determine how files are indexed in the connectivity configMatch connectivity class names and modalities. Use `files_indexed_by` to determine how files are indexed in the connectivity confighttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/129fix: add custom entity to root elements of mebrains2023-10-18T15:10:12+02:00Gui, Xiaoyunfix: add custom entity to root elements of mebrainshttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/126Chenonceau2023-10-11T17:33:28+02:00Ahmet Nihat SimsekChenonceauAhmet Nihat SimsekAhmet Nihat Simsekhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/115feat: add ebrains ref2023-10-11T16:56:55+02:00Gui, Xiaoyunfeat: add ebrains refneeded for experimental homology & region previous versionneeded for experimental homology & region previous versionhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/127add doi to all parcellations2023-10-10T12:31:54+02:00Ahmet Nihat Simsekadd doi to all parcellationsThis PR aims to remedy all missing EBRAINS or external publication references.
- Each reference must have a URL
- For external datsets, uses `GenericDataset` scheme digested from "publications" field.
- When possible, remove the referenc...This PR aims to remedy all missing EBRAINS or external publication references.
- Each reference must have a URL
- For external datsets, uses `GenericDataset` scheme digested from "publications" field.
- When possible, remove the references to Ebrains KG version 1 (#26 ).Ahmet Nihat SimsekAhmet Nihat Simsekhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/125Chenonceau anatomical dataset at 200um2023-10-05T12:43:28+02:00Ahmet Nihat SimsekChenonceau anatomical dataset at 200umhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/124Add version UUID for cell density features2023-10-04T14:50:57+02:00Ahmet Nihat SimsekAdd version UUID for cell density featuresSolves missing urlsSolves missing urlshttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/123Add von economo map2023-09-29T11:25:43+02:00Ahmet Nihat SimsekAdd von economo maphttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/122Add mars atlas2023-09-28T17:12:00+02:00Ahmet Nihat SimsekAdd mars atlasThe atlas is added based on http://meca-brain.org/software/marsatlas/.
The color map and the subcortical structures are taken from http://meca-brain.org/software/marsatlas-subcortical/.The atlas is added based on http://meca-brain.org/software/marsatlas/.
The color map and the subcortical structures are taken from http://meca-brain.org/software/marsatlas-subcortical/.https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/121Add new pli voi2023-09-28T13:19:38+02:00Ahmet Nihat SimsekAdd new pli voihttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/120Rename bigbrain sections and voi to show section at the beginning2023-09-27T10:25:39+02:00Ahmet Nihat SimsekRename bigbrain sections and voi to show section at the beginninghttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/119Add broca voi2023-09-25T21:17:17+02:00Ahmet Nihat SimsekAdd broca voiWaiting for feedback on modalityWaiting for feedback on modalityhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/118Add citation data for wikibrainstem2023-09-14T13:35:14+02:00Ahmet Nihat SimsekAdd citation data for wikibrainstemhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/117Add wiki brain stem voi2023-09-11T10:31:58+02:00Ahmet Nihat SimsekAdd wiki brain stem voihttps://www.sciencedirect.com/science/article/pii/S1053811921003578https://www.sciencedirect.com/science/article/pii/S1053811921003578https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/113add ci to release pipeline2023-08-31T13:54:08+02:00Gui, Xiaoyunadd ci to release pipelinehttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/112Recreate difumo jsons from the source https://parietal-inria.github.io/DiFuMo/2023-08-31T13:30:20+02:00Ahmet Nihat SimsekRecreate difumo jsons from the source https://parietal-inria.github.io/DiFuMo/Due to duplicate name issues (https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/issues/16) and possibly incorrect label-name mapping, parcellation and map preconfigurations of DiFuMo atlases are remade using the origi...Due to duplicate name issues (https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/issues/16) and possibly incorrect label-name mapping, parcellation and map preconfigurations of DiFuMo atlases are remade using the original source https://parietal-inria.github.io/DiFuMo/.
The naming scheme in the source is used, i.e., "Component {label}: region_name". (see https://parietal-inria.github.io/DiFuMo/1024) (This is especially important for regions such as "Cerebellum VIIb" in DiFuMo 1024).Ahmet Nihat SimsekAhmet Nihat Simsekhttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/111Fix name mistmatch of Julich brain 3 regions2023-08-16T15:53:23+02:00Ahmet Nihat SimsekFix name mistmatch of Julich brain 3 regionsSee https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/issues/19
NOTE: The code changes it for all mapsSee https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/issues/19
NOTE: The code changes it for all mapshttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/85add ci to check map region names in parcellations2023-08-16T15:52:35+02:00Ahmet Nihat Simsekadd ci to check map region names in parcellationshttps://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/110Add unparcellated regions to fsaverage jba3 map2023-08-16T09:13:47+02:00Ahmet Nihat SimsekAdd unparcellated regions to fsaverage jba3 mapRequires https://github.com/FZJ-INM1-BDA/siibra-python/pull/435 to be utilized.Requires https://github.com/FZJ-INM1-BDA/siibra-python/pull/435 to be utilized.https://jugit.fz-juelich.de/t.dickscheid/brainscapes-configurations/-/merge_requests/109fix mebrains errors2023-08-01T13:06:15+02:00Gui, Xiaoyunfix mebrains errors