CrossLink is a versatile tool for the exploration of relationships between RNA sequences. After a parametrization phase, CrossLink uses the established tools BLAST, Vmatch and RNAhybrid to determine sequence relationships. Then, nucleotide sequences and their relationships are displayed as nodes and links of a network, respectively. Relationship attributes are reflected by labels and graphical attributes of each link and corresponding alignments pop up on a mouse-click. The type and number of links displayed can be adjusted interactively using value histograms and thresholds – taking a combination of dependencies on different relationship aspects into account. Powerful network layout operations and navigation capabilities complete the visualization features of this tool.
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Tobias Dezulian1, Martin Schaefer, Roland Wiese, Detlef Weige and Daniel H. Huson
CrossLink: visualization and exploration of sequence relationships between (micro) RNAs
Nucl. Acids Res. (1 July 2006) 34 (suppl 2): W400-W404.