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We help use the NMPDR RAST servers and also run our own for sequence annotation. I'd have to check but if I'm remembering correctly our annotations fix errors (
by aroch 12y ago
We help use the NMPDR RAST servers and also run our own for sequence annotation. I'd have to check but if I'm remembering correctly our annotations fix errors (~%5) present in the NCBI databases and catches many more (something like ~20% of unknowns) for the organisms we work with. Problem is searching our indexes is super slow (comparatively) and not all in one place -- BLASTn/p takes some fiddling.
Could we use our own corpus for this?
Ah, I see you have some problems with species identification...are you using old NCBI datasets?
(ps. If you'd like to talk, you can email me at the address in my profile)
- sakai 12y agoYes, we're building out the features to make it easy to use with your own corpus. I'll follow up by email, but can you clarify what species identification issues you're seeing? (Would like to double check and get it fixed asap if there's a problem). Thx!
- aroch 12y agoIt's a problem with NCBI, they have a bunch of H. haemolyticus and Hflu typed incorrectly. In fairness, I don't think NCBI is really on top of fixing those.