Ontology of bioimage informatics operations, topics, types of data, and data formats. EDAM-Bioimaging is an extension of the EDAM ontology (edamontology.org) dedicated to bioimaging data analysis, and developed in an open collaboration including partners from NEUBIAS (neubias.org), COMULIS (comulis.eu), and ELIXIR (elixir-europe.org)..
FOR EDITORS NB.: (CHANGE FROM PREVIOUS!) When adding a new concept, you MUST fill in an appropriate ID a.k.a. IRI a.k.a. URI of the new concept. In order to support future traceabilty, it MUST have the following form:
http://edamontology.org/<sub-ontology>___<underscored-label>
where <sub-ontology> is one of data, format, operation, topic
and <underscored-label> is the first short label you give to the concept, with spaces replaced by underscores ('_').
The 3 underscores ('___') are necessary in this temporary agile setting, to mark the next 3rd alpha version alpha03.
Example:
http://edamontology.org/topic___New_ultra_super_nanoscopy
Sorry for a complication and thank you for understanding!!!
That didn't really work well
Still problems:
Had to change some IDs manually while merging into git version
When afterwards merged back to WebProtege, lost Comments for re-ID-ed concepts
From alpha03
IDs should be automatically assigned as http://edamontology.org/znew____<underscored-label>. Number of 'N' underscores corresponds to the alpha'N'_dev version.
N.B. !!DANGEROUS!!: Thus Comments would be kept only for:
older concepts, or
ONES THAT HAVE BEEN MERGED TO GIT & BACK TO WEBPROTEGE, or
ONES THAT ARE ADDED WHILE TEMPORARILY CHANGING THE ID SETTINGS. !!DANGEROUS!!
alpha02 collaborative dev
IDs had to be changed manually when merging to git, as the WebProtege project was set up unoptimally.
Problem: When afterwards merged back to WebProtege, would loose Comments for re-ID-ed concepts.
Thus are all comments kept in old, frozen "live" alpha02_dev at https://webprotege.stanford.edu/#projects/046821ee-2307-4d3f-b4a7-dececc665b92/edit/Classes
Was after alpha02
That didn't really work well
Still problems:
From alpha03
IDs should be automatically assigned as
http://edamontology.org/znew____<underscored-label>
. Number of 'N' underscores corresponds to the alpha'N'_dev version.N.B. !!DANGEROUS!!: Thus Comments would be kept only for: