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OpenKnowledgeSpace / methodsOntology

Repository for development of the neuroscience methods ontology.
MIT License
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Mouse brain ontology - serious issues #45

Open srjimenez opened 8 years ago

srjimenez commented 8 years ago

Our Mouse brain ontology has some serious issues. ex. Field CA1 MBA:382 should have as synonym CA1 as in the original Allen mouse ontology but we have a second separate term MBA:1152 which has no parents... In fact all the terms MBA 1146 to 1152 seem to have been added without any hierarchy at all....

tgbugs commented 8 years ago

MBA:382 is correct here: https://github.com/SciCrunch/NIF-Ontology/blob/master/ttl/generated/mbaslim.ttl#L9985 MBA:1146 - MBA:1152 no longer exist in the allen data system, see: https://github.com/SciCrunch/NIF-Ontology/blob/master/ttl/generated/mbaslim.ttl#L4045 for reference.

tgbugs commented 8 years ago

See for example http://api.brain-map.org/api/v2/data/Structure/1146 which points to something that isn't even part of the brain. These were present when I added it to git from the old dropbox folder.

srjimenez commented 8 years ago

Is there a plan to update the ontology to the latest version?

tgbugs commented 8 years ago

If you all update your graphload yaml file to point to your fork of https://github.com/SciCrunch/NIF-Ontology/blob/master/ttl/generated/mbaslim.ttl instead of https://github.com/NeuroscienceKnowledgeSpace/methodsOntology/blob/master/ttl/hbp_abam_ontology.ttl then everything should just work.

srjimenez commented 8 years ago

?Many thanks Tom.

Silvia

From: Tom Gillespie notifications@github.com Sent: Thursday, May 26, 2016 8:06 PM To: NeuroscienceKnowledgeSpace/methodsOntology Cc: Silvia Jimenez; Author Subject: Re: [NeuroscienceKnowledgeSpace/methodsOntology] Mouse brain ontology - serious issues (#45)

If you all update your graphload yaml file to point to your fork of https://github.com/SciCrunch/NIF-Ontology/blob/master/ttl/generated/mbaslim.ttl instead of https://github.com/NeuroscienceKnowledgeSpace/methodsOntology/blob/master/ttl/hbp_abam_ontology.ttl then everything should just work.

You are receiving this because you authored the thread. Reply to this email directly or view it on GitHubhttps://github.com/NeuroscienceKnowledgeSpace/methodsOntology/issues/45#issuecomment-221948793