- Open a genome version
- Go back to the IGB start screen.
- Go to a region
- Add a new data set to IGB's list of active data sets
- Remove a data set from IGB's list of active data sets
- Change the load mode for an active (opened) data set
- Load data from currently active data sets
- Make images
- Select genes
- Wait (sleep) for commands to finish
You can control IGB from scripts, text files containing simple commands for navigation, loading data, and making snapshots.
To run an IGB script:
- Open a script file using File > Open. Script files should end with .igb.
- Click an IGB script link. See: Controlling IGB using IGB Links
- Drag and drop a script file into an open IGB windowjp
Note: A protoype plug-in enabling python scripts (.py extension) was developed but is not yet released. If you would like to know more, please get in touch.
The script file has a simple, space-delimited syntax. Each command should occupy a separate line.
Open a genome version
Open genome version (e.g., H_sapiens_Mar_2006). Any genome version or synonym that's accepted by IGB is accepted here.
Go back to the IGB start screen.
Return to the IGB start screen.
Go to a region
Go to a region of a chromosome (e.g., "chr1:40000-60000" or "chr1:40,000-60,000").
Add a new data set to IGB's list of active data sets
Load the specified file (identified by full path) or URL into IGB. The data set will appear in the user's Data Management table upon completion.
Remove a data set from IGB's list of active data sets
Change the load mode for an active (opened) data set
Change the load mode for the specified data set or file, identified by full path.
Load data from currently active data sets
This is equivalent to clicking the Load Data button in IGB. This triggers loading of data from the active data sets available in IGB, as specified in the load command.
Export the entire frame, main view, main view with labels, or sliced view, respectively, to a PNG format file. You must include the full path to the file or IGB will write the file to the location from where you launched IGB.
The filename defaults to "<genome_version><timestamp>.png" if not specified.
Selects the given gene IDs, which are passed in as a comma-separated list.
Wait (sleep) for commands to finish
Sleep the application for x milliseconds.
Lines starting with the IGB script comment character '#' are ignored.
Loading a BAM file