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Modeling non-gene features as top-level type
fields
#8
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Hi @ifiddes thank you for your comment. |
Under the recommendations for the
type
field, you say:I agree with all of this, but I think that the recommendation should be extended further to regularize non-transcribed features.
Right now non-transcribed features can be all over the map, and as a result become hard to parse. In the NCBI annotation of GRCh38, a wide array of top-level non-gene features are used. Additionally, I have not seen any spec define a collection of non-transcribed features (analogous to isoforms of a gene).
In the specification I built under the BioCantor repo, I attempted to regularize top-level features by calling any grouping of non-transcribed features a
biological region
(which I chose based onSO:0001411
), and then deviated from SO by calling any interval in that grouping afeature_interval
. I then also chose to define a "joined" interval of non-transcribed feature (analogous to an exon) asubregion
.The text was updated successfully, but these errors were encountered: