VirtualFlyBrain / DrosAdultHalfBRAINdomains

Domains from confocal serial section image data used for the study "A Systematic Nomenclature for the Insect Brain" Kei Ito, et al.
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Missing metadata for regions #3

Open Robbie1977 opened 8 years ago

Robbie1977 commented 8 years ago

Most have missing FB refs but also some with FB refs are missing VFB individual ids

Keep in mind some are also duplicates #2

https://github.com/VirtualFlyBrain/DrosAdultHalfBRAINdomains/blob/master/refData/merged_domains.tsv

dosumis commented 8 years ago

A bunch of tracts were never mapped.

These do appear to be missing though and should be fixed.

301 377.573,164.324,79.0452 0,0,44 mALT FBbt_00003985 medial antennal lobe tract
302 231.134,163.014,59.4772 0,0,123 AOT FBbt_00100337 anterior optic tract
303 315.342,282.915,84.5578 0,0,255 POC FBbt_00007427 posterior optic tract
304 403.326,234.279,72.9831 0,70,149 GC FBbt_00007080 great commissure

(Test query MATCH (i:Individual)-[r:INSTANCEOF]-(c:Class) WHERE i.annotation-database_cross_reference[0]='source:BrainName_Ito_half_brain' RETURN i.label, r, c.label;)

dosumis commented 8 years ago

Two of these are duplicate domains mALT FBbt_00003985 medial antennal lobe tract GC FBbt_00007080 great commissure

Happy to add these, but presumably we should just display 1.

I've been thinking about control of display. Think it makes sense to have booleans on datasets and individual inds (anatomy? channel?) to mark for display not.

dosumis commented 8 years ago

We do have this:

AOT VFB_00030827 anterior optic tract FBbt_00100337

I've just realised that unique label assumption means that we can't add multiple domains with the same name to the DB. Perhaps easiest if we choose tracts from the tract mask over those from the neuropil mask if they are in both.

dosumis commented 8 years ago

Also clearly need to switch to adding domain IDs during loading inds.

dosumis commented 8 years ago

Note to self - can use owl_individual.ID_in_source to add domain IDs to lmb db, but better to use attribute on channel KB.