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This work was funded by USDA-IFAFS grant #11180 titled Web Resources
for the Computation and Display of Physical Mapping Data.
Configuration file for GBrowse:
Configuration file tells GBrowse what glyphs to use to render each
of the feature types. The format of these configuration files are
described in GBrowse Documentation. See the GBrowse
CONFIGURE_HOWTO.txt file for details. Following is the sample
configuration file for Rice FPC Genome Browser.
Download/View: ricefpcchr.conf
(based on Chromosome Coordiante System)
Description of sample ricefpcchr.conf file:
FPC GBrowse displays the Contigs and frameworkmarkers in the overview
display. Markers, Sequences and BACs tracks are displayed in the
detail view of the browser.
Marker Track Details:
Marker track displays different types of markers as described below:
- Frameworkmarkers: Displayed in red color in Marker Track
- Placementmarkers: Displayed in blue color in Marker Track
- electronicmarkers: Displayed in yellow color in Marker Track
- other markers: Displayed in green color in Marker Track
Markers are linked to markers.cgi script which gives more details
for each marker.
(Note: Marker.cgi file is also provided with the package that can
be downloaded from http://www.agcol.arizona.edu/software/biofpc/download/)
Sequence Track Details:
Sequence track displays Sequence information from FPC. Sequence
are linked to GenBank Record for viewing more detailed information.
BAC Track Details:
BAC track displays BACs informtion from FPC. BACs are linked to
clone.cgi script which gives more details for each BAC.
(Note: clone.cgi file is also provided with the package that can
be downloaded from http://www.agcol.arizona.edu/software/biofpc/download/)
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