Search results for "distribution:Bio-Das feature"
Bio::Das::Feature - A genomic annotation
A Bio::Das::Segment::Feature object contains information about a feature on the genome retrieve from a DAS server. Each feature -- also known as an "annotation" -- has a start and end position on the genome relative to a reference sequence, as well a...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das::FeatureIterator - Iterate over a set of Bio::Das::Features
When the Bio::Das->features() method is called with the -iterator argument, the method will return an iterator over the features returned from the various data sources. Each feature can be returned by calling next_seq() iteratively until the method r...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das::Request::Feature2Segments - Translate feature names into segments
This is a subclass of Bio::Das::Request specialized for the "features" command with specialized arguments that allow it to translate a feature name into a segment of the genome. It works by issuing the DAS features command using a type of NULL (which...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das - Interface to Distributed Annotation System
Bio::Das provides access to genome sequencing and annotation databases that export their data in Distributed Annotation System (DAS) format version 1.5. This system is described at http://biodas.org. Both unencrypted (http:) and SSL-encrypted (https:...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das::Type - A sequence annotation type
The Bio::Das::Type class provides information about the type of an annotation. Each type has a category, which is a general description of the type, a unique ID, which names the type, and an optional method, which describes how the type was derived. ...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das::Segment - Serial access to Bio::Das sequence "segments"
The Bio::Das::Segment class is used to retrieve information about a genomic segment from a DAS server. You may retrieve a list of (optionally filtered) annotations on the segment, a summary of the feature types available across the segment, or the se...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das::Request - Base class for a request on a DAS server
Each type of request on a DAS server (e.g. an entry_points request) is a subclass of Bio::Das::Request. The request encapsulates the essential information on the request: the server, the data source, and the command that will be executed. After the r...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC
Bio::Das::Stylesheet - Access to DAS stylesheets
The Bio::Das::Stylesheet class contains information about a remote DAS server's preferred visualization style for sequence features. Each server has zero or one stylesheets for each of the data sources it is responsible for. Stylesheets can provide s...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC