OptionsExample| | This command allows a user to bring the IGB window to the forefront of the screen, in front of all open windows. It accepts no arguments. | bringToFront | | deleteAllTracks | | This command accepts no arguments, and will remove all loaded data sets from IGB on execution (note: including default annotation tracks for a genome version). | deleteAllTracks |
| deleteTrack | <file or URL> | This command accepts one or more comma separated files identified by full path or URL. If a matching track is found for the specifed URL/path it will be deleted. | deleteTrack http://igbquickload.org/A_thaliana_Jun_2009/TAIR10_mRNA.bed.gz |
genome | <version> | Specify a genome version | none | Make IGB the top window on the Desktop. | bringToFront |
| genome | <version> | Load a genome version. Accepts IGB-friendly genome version names (e.g., H_sapiens_ |
Mar2006. Any genome version or synonym that's accepted by IGB is accepted here.| and synonyms. | genome H_sapiens_Mar_2006 |
| goto | <region> | Go to a region |
of a chromosome (e.g., "chr1:40000-60000")| . Any format that's accepted by IGB is accepted here |
. | . Commas are optional. | goto chr1:13,640,211-13,643,760 goto chr1:13640211-13643760
|
| hidetrack | <file or URL> | Hide the |
specified | track. Accepts one or more comma separated files identified by full path or URL. |
homescreen | homescreen |
| load | <file or URL> | Load the specified file (identified by full path) or URL into IGB. The data set will appear in the |
user's | loadfromserver | | | |
| Data Management table upon completion. |
| CHROMOSOME | | GENOME> <file or URL> | Change the load mode for |
the specified data set or file, identified by full path. | refresh | a data set. Note: The loadmode command will work for any loaded track. Make sure to load your desired track before calling the loadmode command. | loadmode GENOME http://igbquickload.org/M_musculus_Dec_2011/M_musculus_Dec_2011_refGene.bed.gz |
| loadsequence | none | This is equivalent to clicking the Load Sequence button in IGB. This triggers loading of the reference sequence for the region in view. | loadsequence |
| refresh | none | 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. |
| refresh |
| select | <geneids> | Selects the given gene IDs, which are passed in as a comma-separated list. |
If the command contains a single gene ID then IGB will select and jump-zoom to the given gene. | select AT1G36280.2,AT1G36240.1,AT1G36340.1 |
| selectfeature |
| | sidetrack | | | | <geneids> | Selects the given gene IDs, which are passed in as a comma-separated list. | selectfeature |
| showtrack | <file or URL> | Unhide the specified track. Accepts one or more comma separated files identified by full path or URL. |
| | sleep 6000 |
| snapshot | <filename> |
Export Note: specify the full path to file.
| Create an image showing the entire IGB window. the entire frame an image file. The filename extension determines the format. Supported formats are .png, .jpeg, and .svg |
. . Note: This command only works on Mac and Linux if attempting to export an SVG file. | snapshot alternativesplicing1.png |
| snapshotmainView | <filename> |
Export the main view an image file. The filename extension determines the format. Supported formats are .png, .jpeg, and .svg. | | Same as snapshot but only makes an image showing the main IGB data display. | snapshotmainView testimage.jpeg |
| snapshotmainViewWithLabels | <filename> | Export the main view with labels an image file. The filename extension determines the format. Supported formats are .png, .jpeg, and .svg. |
| snapshotmainViewWithLabels imageexport1.svg |
| snapshotslicedViewWithLabels | <filename> | Export the sliced view an image file. The filename extension determines the format. Supported formats are .png, .jpeg, and .svg. |
| snapshotslicedViewWithLabels April_1_2015.png |
| snapshotwholeFrame | <filename> | Export the entire frame to an image file. The filename extension determines the format. Supported formats are .png, .jpeg, and .svg |
. . Note: This command only works on Mac and Linux if attempting to export an SVG file. | snapshotwholeFrame GeneAT1G36280wholeframe.jpeg |
| unload | <file or URL> | If a matching track is found for the specified URL/path it will be deleted. Accepts one or more comma separated files identified by full path or URL. |