[Dynamite] SingleModel with metasequences

[Ian Holmes]

On Wed, 8 Mar 2000, Ewan Birney wrote:

> > Are you sure about HMMER?
> > 
> 
> Yup. End->J (non emitting) J->J (emitting). And in other places.

Oh yeah so it does
(although I think you could still get around that, but anyway... emissions
on transitions is fine by me)

> 
> > 
> > No problem to add it back in... you just need to replace the
> > MetasequenceVector with some kind of MetasequenceMap i.e.
> > map<X,Metasequence> to use STL notation
> > 
> > first decide whether you want X to be a string or a wrapper class like
> > State below
> > 
> > then roll your own map<X,Metasequence> interface with get & set methods
> > 
> > finally replace IntVector with sequence<X>
> > 
> 
> Will this be useful? Hmmm.
> 
> 

depends -- in the situation you described (i.e. lots of different kinds of
predictions, more than the user wants to know or care about) then it
sounds like it would be.

probably best to leave X as a string...

ambitious extension: allow metasequences to be an arbitrary set of GFFs?