[DAS2] DAS intro

[Lincoln Stein]

Yes, this is a better intro.

Lincoln

On Friday 25 November 2005 10:21 am, Andrew Dalke wrote:
> The front of the DAS doc starts
>
>    DAS 2.0 is designed to address the shortcomings of DAS 1.0, including:
>
> That kinda assumes people know what DAS 1.0 is to understand DAS 2.0.
>
> How about this instead, as an overview/introduction.
>
>   ======
>
> DAS/2 describes a data model for genome annotations.  An annotation
> server provides information about one or more genome sources.  Each
> source may have one or more versions.  Different versions are usually
> based on different assemblies.  As an implementation detail an
> assembly and corresponding sequence data may be distributed via a
> different machine, which is called the reference server.  Portions of
> the assembly may have higher relative accuracy than the assembly as a
> whole.  A reference server may supply these portions as an alternate
> reference frame.
>
> Annotations are located on the genome with a start and end position.
> The range may be specified mutiple times if there are alternate
> reference frames.  An annotation may contain multiple non-continguous
> parts, making it the parent of those parts.  Some parts may have more
> than one parent.  Annotations have a type based on terms in SOFA
> (Sequence Ontology for Feature Annotation).  Stylesheets contain a set
> of properties used to depict a given type.
>
> Annotations can be searched by range, type, and a properties table
> associated with each annotation.  These are called feature filters.
>
> DAS/2 is implemented using a ReST architecture.  Each entity (also
> called a document or object) has a name, which is a URL.  Fetching the
> URL gets information about the entity.  The DAS-specific entities are
> all XML documents.  Other entities contain data types with an existing
> and frequently used file format.  Where possible, a DAS server returns
> data using existing formats.  In some cases a server may describe how
> to fetch a given entity in several different formats.
>   ======
>
>
> 					Andrew
> 					dalke at dalkescientific.com
>
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-- 
Lincoln D. Stein
Cold Spring Harbor Laboratory
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