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.  Can save in .png, .jpeg, or .svg format.
  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.