RNA pseudoknot prediction via an evolutionary algorithm
CEC'09 Proceedings of the Eleventh conference on Congress on Evolutionary Computation
CEC'09 Proceedings of the Eleventh conference on Congress on Evolutionary Computation
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
RNA-DV: an interactive tool for editing and visualizing RNA secondary structures
Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine
Improving the portability and performance of jViz.RNA --- a dynamic RNA visualization software
PRIB'12 Proceedings of the 7th IAPR international conference on Pattern Recognition in Bioinformatics
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In order for structure prediction researchers to better understand the results of their algorithms and to enable life science researchers to interpret RNA structure easily, it is helpful to provide them with a flexible and powerful tool for RNA secondary structure visualization. jViz.Rna is a multi-platform visualization tool capable of displaying RNA secondary structures encoded in a variety of file formats. A single structure can be shown using the linear Feynman, circular Feynman, dot plot, and classical structure visualization models. The resulting drawings are dynamic and can easily be further modified by the user. Any of the drawings produced can be saved to disk enabling easy dissemination. The unique usage of a spring model for classical structure drawing allows for clear visualization of pseudoknots with minimal overlaps. The addition of a locality tool allows for the isolation of pseudoknotted regions or other regions of interest. Availability: http://jviz.research.iat.sfu.ca