Generic Genome Browser v2.4, often referred to as GBrowse, is a genome viewing tool with the ability to display many differing types of data in relation to an organism's genome. Each type of data is displayed in a separate "track", as seen under "Details". This is one of the most significant advantages of GBrowse over other genome browsers. Anyone viewing a GBrowse site can enable or disable any track and create a customized page suited directly to their needs.
Once a GBrowse window is open, start using GBrowse by clicking on the "Select Tracks" tab at the top left. A track displays one or more glyphs ("horizontal, graphical representation of a single variable as a function of position"). Then select and unselect the tracks you wish to view or hide. To go back to the Browser, click on the "Browser" tab at the top left of the page or click on the "back to browser" link in the top left.
Type the desired gene into the box labeled "Landmark or Region", or click on one of the example links near the top left of the page to display the associated data. The examples should make it clear what format you must type your search query in. Based on the query, the browser will automatically zoom in or out to display the gene.
To manually zoom in or out, use the arrows or the drop down menu near the"Scroll/Zoom" section on the top right corner. Use the arrow keys in the same area to shift the window to the right or left of the current region. The grey region in the "Overview" section is a representation of the current scaffold and the orange colored bar represents the current location on the scaffold. Select the desired region to move around the scaffold.
Gbrowse offers an extremely useful download tool visible in the top right corner of any GBrowse page. In addition, we will soon offer an alternate method separate from gbrowse that allows bulk download of the .gff3 and .fasta files that have been used.