- Improving pairwise sequence alignment accuracy using near-optimal protein sequence alignmentsMichael L Sierk
Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA 22908, USA
BMC Bioinformatics 11:146. 2010..Thus, we have examined a range of suboptimal sequence alignments and a range of scoring parameters to understand better which sequence alignments are likely to be more structurally accurate...
- Cytoscape 2.8: new features for data integration and network visualizationMichael E Smoot
Department of Medicine, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
Bioinformatics 27:431-2. 2011..Availability and implementation: Cytoscape is a desktop Java application released under the Library Gnu Public License (LGPL). Binary install bundles and source code for Cytoscape 2.8 are available for download from http://cytoscape.org...
- A travel guide to Cytoscape pluginsRintaro Saito
Department of Medicine, University of California, San Diego, La Jolla, California, USA
Nat Methods 9:1069-76. 2012..We present a travel guide to the world of plugins, covering the 152 publicly available plugins for Cytoscape 2.5-2.8. We also describe ongoing efforts to distribute, organize and maintain the quality of the collection...