Review GAG classifiers

[ReneRanzinger]

At some point we will have to review the GAG classifiers. I see two tasks there:

• It would be good to have subclasses for GAG such as Heparin, Chondroiten, Heparan. The motifs are there.
• GGM.001213 matches G00087BT (Core, strict). That is desired and correct I just dont understand why? The Motif has a 2NS but that queried structure does not match does in any place. I understand additional S would be permitted under non-strict rule, but missing substituents?

[edwardsnj]

@ReneRanzinger Second point - I don't understand - it appears to match correctly at the core. I'm wondering if there used to be an old (bad) image for that accession and now it is correct with a 2S on the monosaccharide at the reducing end?

First point - I agree it would be nice. I implemented Keratan sulfate as a GAG subtype but for the rest I couldn't pin down a definition. Just the core motif matching was not enough for the Keratan sulfate subclass, there were a bunch of additional heuristics needed. Similar heuristics could be defined for the other specific GAGs.

[ReneRanzinger]

@edwardsnj I dont see the second problem anymore. Either it was one of the tickets I made late at night and I was too tired and was not thinking clearly ... or it was an old image issue.