© 2013-2021
Broad Institute
and the Regents of the
University of California
Menu Bar
| Menu | Command | Description |
|---|---|---|
| File | Load from File | Displays genomic data from one or more files. more... |
| Load from URL | Displays genomic data from a file identified by URL. more... | |
| Load from Server | Displays genomic data from the IGV data server. more... | |
| New Session | Unloads all currently loaded data, as if you exited and restarted IGV. more... | |
| Open Session | Opens a previously saved session file. more... | |
| Save Session | Saves your current settings to a named session file. more... | |
| Reload Session | Reloads all the tracks in the current session.The viewing parameters and other settings remain the same. | |
| Save Image | Saves a snapshot of the IGV window to a graphics file, omitting the menu bar and tool bar. Specify the image file format by setting the filename extension in the file save dialog to .png or .svg. | |
| Exit | Closes IGV. | |
| Genomes | Load Genome from File | Loads a genome into IGV from your file system. |
| Load Genome from URL | Loads a genome into IGV from a web URL. | |
| Load Genome from Server | Loads a genome into IGV from the IGV data server. more... | |
| Remove Genomes | Remove one or more genomes from the Genomes dropdown menu. The currently displayed reference genome cannot be removed. | |
| Create .genome File | A utility for creating an IGV .genome file that packages the sequence and optionally other attributes. | |
| View | Preferences | Opens a tabbed menu of data display preferences. more... |
| Color Legends | Displays color legends for track data, which may be modified. more... | |
| Show Name Panel | Shows/hides the track name panel. | |
| Set Name Panel Width | Resets the track name panel width. | |
| Show Attribute Display | Shows/hides the sample/track attribute panel. more... | |
| Select Attributes to Show | Shows/hides selected individual attributes columns in the attribute panel. more... | |
| Show Header Panel | Shows/hides the panel with the chromosome location information and ruler. | |
| Reorder Panels | Allows the user to reorder the display panels in the IGV window. | |
| Go to | View and select loci visited in your navigation history. | |
| Tracks | Sort Tracks | Sorts track data. more... |
| Group Tracks | Groups track data. more... | |
| Filter Tracks | Filters track data. more... | |
| Fit Data to Window | Sets the track height to display all of the data, or as much data as possible. more... | |
| Set Track Height | Sets the track height to a specified value. more... | |
| Regions | Region Navigator | Opens the region navigator. more... |
| Gene Lists | Opens the gene lists window. more... | |
| Export Regions |
Saves currently defined regions of interest to a BED file. If no regions of interest are defined, no BED file is created. more... |
|
| Import Regions | Imports regions of interest from a BED file. more... | |
| Tools | Run Batch Script | Executes a series of sequential tasks. Users can load at .txt file that contains a list of commands, one per line, that will be run by IGV. The accepted commands are the same as the IGV Port Commands. |
| Run igvtools | Launches the igvtools interface window. more... | |
| Find Motif | Search for a particular nucleotide sequence in the reference genome. more... | |
| BLAT | Run a BLAT search on an entered query sequence. more... | |
| Combine Data Tracks | Combine two selected numeric tracks to dynamically create a new track. Operators include add, subtract, multiply, and divide. For example, when multiplying two tracks, for a locus each with data values of 10 and 2 in the separate tracks will have a value of 20 in the new track. | |
| GenomeSpace |
Load File from GenomeSpace |
Load a file into IGV from your GenomeSpace directory. more... |
| Load Genome from GenomeSpace | Load a genome into IGV from your GenomeSpace directory. more... | |
| Save Session to GenomeSpace | Save current IGV session to your GenomeSpace directory. more... | |
| Load Session from GenomeSpace | Load a previous session from your GenomeSpace directory. more... | |
| Logout | Log out of GenomeSpace | |
| Register | Register a new account at GenomeSpace | |
| Help | User Guide... | Displays the IGV User Guide. |
| Help Forum... | In your default web browser, opens the home page for the igv-help forum. | |
| About IGV | Displays IGV version and build number. |