Difference between revisions of "Gbgff"

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*gbgff is a GFF3 dumper script that come packaged with GBrowse version 1.69 and later.
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'''''gbgff''''' is a GFF3 dumper script that come packaged with GBrowse version 1.69 and later. &nbsp;Its purpose is the export configured annotations from one instance of Gbrowse to another.
*Its purpose is the export configured annotations from one instance of Gbrowse to another
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*It is analogous to DAS, except that:
 
*It is analogous to DAS, except that:
 
**It supports both server and client-side configuration of glyph rendering
 
**It supports both server and client-side configuration of glyph rendering

Revision as of 13:22, 19 March 2008

FlyBase gene models displayed as remote tracks on Gbrowse, via gbgff

gbgff is a GFF3 dumper script that come packaged with GBrowse version 1.69 and later.  Its purpose is the export configured annotations from one instance of Gbrowse to another.

  • It is analogous to DAS, except that:
    • It supports both server and client-side configuration of glyph rendering
    • It supports 3-level gene models and other multi-level features made possible by GFF3

Installation

  • gbgff does not require an special set-up, it is installed with Gbrowse.
  • This application has only been tested with servers using a GFF-3 back-end with Bio::SeqFeature::Store

Configuration

Server-side

Client-side

# Dirt simple GFF3 dumper, suitable for a lightweight replacement to DAS.
# Call this way:
#    http://my.host/cgi-bin/gbgff/volvox?q=ctgA:1..2000;t=Genes+ExampleFeatures
#
# From within the "Add Remote Annotations" section, you can say:
#     http://my.host/cgi-bin/gbgff/volvox?q=$segment;t=Genes+ExampleFeatures