Welcome to the homepage of RnaViz
Documentation
Guided tour
Binary distributions
Source distribution
Latest News
2013 Dec.: an easier binary distribution is available (this includes all dependencies)
What is RnaViz
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
- zoom
- independend scaling of structure drawings
- portable
Open source
RnaViz is fully open source: It is licensed under the GPL.
Tcl/Tk as well as the
Extral and
ClassyTcl/Tk Tcl extensions it
depends on are available under the BSD license.
Reference information
If you use this program, you should cite the following article:
Peter De Rijk, Jan Wuyts and Rupert De Wachter (2003)
RnaViz2: an improved representation of RNA secondary structure.
Bioinformatics 19(2): 299-300
The paper on the previous version:
Peter De Rijk and Rupert De Wachter (1997)
RnaViz, a program for the visualisation of RNA secondary structure.
Nucleic Acids Res. 25(22): 4679-4684
Peter De Rijk