Regions of Interest
Regions of interest are intervals that are defined and bookmarked by the user. Once the region is defined, it can be given a short description, can be used for sorting, and the sequence contained in that interval can be copied to the system clipboard for use in another application.
Defining a Region of Interest
To define a region of interest:
The defined region of interest is highlighted with a red bar just under the chromosome ruler. The black lines only appear if you hover your cursor over that red bar:
Using Regions of Interest
Options Available From the Region of Interest Bar
Options Available from the File Menu
The Region Navigator provides an editable table view of defined "regions of interest. The table can be used to edit, add, and remove regions of interest as well navigate. To open the Region Navigator select View>Region Navigator... from the main menu.
Adding Regions with the Region Navigator
You can add regions of interest by defining them as above. You can also leave the Region Navigator open while you browse your data and genome, and when you are zoomed into a region that interests you, click Add. This will add the entire interval currently visible in IGV as a region of interest in the Region Navigator.
You can add or edit descriptions for each region by double-clicking the Description field for a given region.
You can also edit the defined intervals for each region by similarly double-clicking the fields corresponding to the Start or End of intervals.
You can define multiple regions of interest on the same or different chromosomes, and those regions will be captured in the Region Navigator.
To navigate among multiple regions of interest, click a region. IGV will display that region, and zoom the view if you have Zoom to Region selected.
If you only want to see a listing of the regions on a single chromosome, navigate to that chromosome in IGV, open the Region Navigator, and clear the Show All Chrs checkbox.