Introduction
When you download and launch IGB for the first time, you will have a set of default data sources configured. As of July 2010 (IGB version 6.3), these include:
- UC Santa Cruz Genome Browser DAS1 service
- NetAffx (Affymetrix) DAS2 service
- NetAffx (Affymetrix) QuickLoad server
- BioViz (Loraine lab) QuickLoad server
- BioViz (Loraine lab) DAS2 service
- Hughes Lab QuickLoad server (S. pombe data)
- Ensemble DAS2 service (includes many plant genomes not supported by UC Santa Cruz)
You also will have access to a few others, which are de-activated at first. But you can activate them if you like. And - of course - you can add more, including your own custom genomes.
How to add or remove a new data source
Choose File > Preferences > Data Sources or click the Configure button on the Data Access Panel to open the data sources configuration panel:
When you click the Configure button (or choose File > Preferences > Data Sources), you will see a window that looks like the image below.
Note how each data source has a Type, a URL, and an Enabled checkbox.
To turn a source off or on, just click the Enabled checkbox.
When data sources are disabled, IGB will show them as grayed out. To remove a data source from the list, click on it to select it and then click the Remove button.
To add a new data source, click the Add button. You will then see a window that looks a bit like this:
To add the data source,
- Enter a name for your new source. The name can be whatever you like - this name will appear in the Data Sources section of the Data Access Panel.
- Choose the type of the data source. Currently, options are DAS2, DAS1, and QuickLoad.
- Enter the URL associated with the Data source. If your data source is a QuickLoad site, then IGB will activate the button which will allow you to choose a local folder, since QuickLoad sites can either be on a remote computer (accessible via a URL Web address, such as http://www.bioviz.org/quickload) or a folder on your local computer.
- Click Add Server or Cancel. If you click Add Server, IGB will immediately add your data source to the list of available data sources.
Troubleshooting. If the data source has a problem - for example, if it is missing an important configuration file, then IGB will print error messages to the Console which may help you diagnose the problem. Just choose the Help > Show Console to view the error messages. If this doesn't help, then contact the IGB team for assistance or post a help request to the IGB Help Forum.