[Bioperl-l] Using frame info from GFF ingettinga Seq->spliced_seq

Chris Fields cjfields at uiuc.edu
Fri Dec 8 14:04:55 EST 2006


> > Another issue is the splittype() is not defined, though I 
> don't think 
> > that would kill anything as currently implemented.  
> However, one thing 
> > we have passingly discussed is having Bio::Location::Split objects 
> > possibly exhibit different (but expected) behaviors based upon the 
> > splittype() (order, join, or bond).  It's one of the things 
> I want to 
> > work out for the next release.
> 
> Should I be writing -splittype => "JOIN" or some such in my new()?
> 
> -Amir Karger

I missed the fact that 'JOIN' is the default splittype() from looking at the
constructor in Location::Split, so you actually don't have to explicitly set
it; apologies for that.  

If we make any changes that affect how Location::Split behaves we'll likely
leave the default splittype() as 'JOIN' as it's by far the most common join
operator.  

chris




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