[DAS] segments, features and overlaps

Lincoln Stein lstein at cshl.org
Wed May 21 17:26:25 EDT 2003

Ah, you can see how late my e-mail is running.  

The answer to this is that I think it is highly desirable to return features 
that overlap the segment boundary and to return the non-clipped object.  This 
has the effect of producing features where one end is inside the requested 
range and the other end is outside.  This was required by the version 0.95 

As I recall, there was some concern on the part of server implementors that 
the search for overlapping features was going to be computationally awkward, 
and so the requirement was made optional.


On Thursday 15 May 2003 03:39 pm, Tony Cox wrote:
> This is a general question - the current DAS spec states:
> "Annotation servers are only required to return annotations which are
> completely contained within the indicated segment. Servers may also return
> annotations which overlap the segment, but are not completely contained
> within them"
> There is a bit of room for choice here and I was wondering if there is any
> consensus for supplying features that overlap a requested segment boundary
> or not? Also I presume that this also applies to reference servers?
> I think dazzle doesn't?
> Tony
> ******************************************************
> Tony Cox                        Email:avc at sanger.ac.uk
> Sanger Institute                WWW:www.sanger.ac.uk
> Wellcome Trust Genome Campus    Webmaster
> Hinxton                         Tel: +44 1223 834244
> Cambs. CB10 1SA                 Fax: +44 1223 494919
> ******************************************************
> _______________________________________________
> DAS mailing list
> DAS at biodas.org
> http://biodas.org/mailman/listinfo/das

Lincoln D. Stein                           Cold Spring Harbor Laboratory
lstein at cshl.org			                  Cold Spring Harbor, NY

More information about the DAS mailing list