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OS: Linux, ...

License: Freeware, GPL

RnaViz is a user-friendly, portable, GUI program for producing publication-quality secondary structure drawings of RNA molecules.

Drawings can be created starting from DCSE alignment files if they incorporate structure information or from mfold ct files. The layout of a structure can be changed easily. Display of special structural elements such as pseudo-knots or unformatted areas is possible. Sequences can be automatically numbered, and several other types of labels can be used to annotate particular bases or areas. Although the program does not try to produce an initially non-overlapping drawing, the layout of a properly positioned structure drawing can be applied to newly created drawing using skeleton files. In this way a range of similar structures can be drawn with a minimum of effort. Skeletons for several types of RNA molecule are included with the program.

Some of the features

recognises ct, rnaml and DCSE alignment formats
multiple structures on page
simple but powerfull WYSIWYG editing using different selection modes
skeletons to easily draw many structure using the same layout
allows display of pseudoknots
free choice of fonts, colors, linewidths for any object
graphica objects for annotation (rectangle, oval, lines, text)
linking of graphics, text to certain bases
tag based changing of properties
automatic sequence numbering
independend scaling of structure drawings