Downloading & Installing Jalview

  1. On the Jalview website, open the download page by clicking the green arrow in the top right hand corner or the ‘Download’ link.

  2. The download options available will reflect if you have Mac or PC computer. Download the application by clicking the green ‘Download’ button as appropriate for your computer operating system.

  3. To install Jalview, go to the download folder and click on the downloaded file, then follow the instructions on the screen.

Extra Help: There are short demo videos in the download section if required (

Note: Demo windows opens in the desktop window when Jalview launches, to disable this go to the Jalview menu in the desktop window, and select Preferences…. In the Preference dialog box that opens, untick the box adjacent to the ‘Open file’ entry in the ‘Visual’ preferences tab and click OK to save. To make Jalview display a different alignment when it launches, tick the ‘Open file’ entry of the ‘Visual’ preferences tab and enter the URL of the sequence you want to load and click OK to save.

For more information on this topic go to section 1.2 of the Jalview manual.