[Biojava-l] Distributions over infinite Alphabets

[Matthew Pocock]

The distribution interface is a bit of a misnomer - I
guess what we wanted was the integral over a PDF, but
because we nearly always used descrete alphabets,
nobody cared.

So - the short answer is that you should be geting the
probability of an ambiguity symbol over [0.0 ..
1.0]and the distribution impl should be integrating
PDF out over that range e.g. a gausian or something.

Does DoubleAlphabet have methods to make these kinds
of ambiguities? If not we need to add it.

Matthew

 --- "Schreiber, Mark"
<mark.schreiber at agresearch.co.nz> wrote: 
> Hi -
>  
> Currently you can make a Distribution over (for
> example) the Double alphabet and you can train it or
> assign a weight to a value (eg the probability of
> the 2.0 Symbol could be set to 0.5).
>  
> Can anyone think of a way to represent a probability
> density as a Distribution? For example you may want
> to set the probability of seeing a value between 0
> and 1.0 to be 0.8. This is a bit tricky as there are
> an infinite number of values between 0 and 1.0 and
> the value of getting exactly 0.237865765 would be
> infinitely small.
>  
> Would this best be represented using something other
> than a Distribution?
>  
> - Mark
>  
> 
>
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