Jalview is an open source project released under the GPL. The web based version is the same Jalview Java program, but compiled into JavaScript with Java2Script and SwingJS (with thanks to Bob Hanson of St Olaf’s College, USA). The web based JalviewJS app is available via the JalviewJS link. The Jalview Desktop App installs on most operating systems, and is available via the Download page, along with links to compiled jars and source code. The About section provides more information about the Jalview project. The Jalview Desktop also provides a graphical interface to the alignment and analysis services provided by the Jav A Bioinformatics Analysis Web Services framework.

It uses Jmol to view 3D structures, and VARNA to display RNA secondary structure, and can also use Chimera, ChimeraX and Pymol for 3D structure visualisation.Įxperimental and predicted (eg alphafold and swiss-model) 3D structures for proteins can be automatically discovered via the 3D-Beacons network, and sequences and alignments retrieved from databases hosted at EMBL-EBI. Jalview has built in DNA, RNA and protein sequence and structure visualisation and analysis capabilities, and provides a linked view of aligned DNA and Protein products. Use it to align, view and edit sequence alignments, analyse them with phylogenetic trees and principal components analysis (PCA) plots and explore molecular structures and annotation. Jalview is a free cross-platform program for multiple sequence alignment editing, visualisation and analysis.

Download protein structure for free