Difference between revisions of "Setting up a Genome Explorer repository"

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(Repository file format)
(Repository file format)
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== Repository file format ==
 
== Repository file format ==
The repository file is a tab-delimited file where each column has a special meaning.
+
The repository file is a tab-delimited file where each column has a special meaning. These should be one row per session, i.e. per data set.
 +
 
 
# repository identifier
 
# repository identifier
# display name for repository, should be reasonably short and informative people
+
# display name for session, should be reasonably short and informative people
# display image for repository, this should be a URL
+
# display image for session, this should be a URL
# description text, this can be html code.
+
# description text for individual session, this can be html code.
 
# url to the session file.
 
# url to the session file.
  

Revision as of 00:55, 16 November 2013

GenomeView allows you to set up a custom repository of genomes that will be loaded as primary view in the Genome Explorer

Recipe

  1. Set up a repository file
  2. Set up configuration file
  3. Make launch URL


Repository file format

The repository file is a tab-delimited file where each column has a special meaning. These should be one row per session, i.e. per data set.

  1. repository identifier
  2. display name for session, should be reasonably short and informative people
  3. display image for session, this should be a URL
  4. description text for individual session, this can be html code.
  5. url to the session file.

An example row could be:

fusobac Fusobacterium nucleatum animalis ATCC51191 http://www.broadinstitute.org/software/genomeview/supplemental/fusobacterium/broadlogo.png Fusobacterium nucleatum animalis ATCC51191 is from a colon sample. This strain was sequenced at Baylor College of Medicine. http://www.broadinstitute.org/software/genomeview/supplemental/fusobacterium/Fuso_animalis_ATCC51191.session