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Below is a (Almost exhaustive as of 2010) list of existing visualization software for the secondary structure of RNA. Please feel free to contact us by email to suggest missing software.

  VARNA NavRNA PseudoViewer RNA2DViewer/S2S RNAMovies RNAPLOT
URL [www] [www] [www] [www] [www] [www]
Algorithms NAView, Radiate, linear, circular NavRNA Planar map Radiate NAView NAView, Radiate
Structure edition Partial Yes Partial Yes No No
Annotation Yes Yes No Partial No No
Pseudoknots support Yes Yes Yes Yes Yes No
Non canonical Yes No No Yes No No
Export vector SVG, EPS, XFIG EPS, GML, SVG EPS, SVG - SVG PS, GML, XRNA, SVG
Export pixel JPEG, PNG BMP, PNG, JPG, ... PNG, GIF PNG PNG, JPG, GIF -
Input formats RNAML, CT, BPSeq, Vienna TLP Vienna+PK, internal RNAML, PDB RNM, RNAStructML -
Output formats CT, BPSeq, Vienna TLP Vienna+PK PDB, CT - -
Platforms All (JAVA) Linux, Mac, Win (C++) Windows (.net) All (JAVA) All (JAVA) Linux, Mac, Win (C)
Applet Yes No No* No Yes No
Non-interactive version Yes No No* No No Yes
Note Standalone re-usable component - *A well-documented webservice can play a similar role, although not on the client side. Very promising - -



  VARNA RNAViz SstructView XRNA
URL [www] [www] [www] [www]
Algorithms NAView, Radiate, linear, circular Radiate ??? Radiate
Structure edition Partial Yes ??? Yes
Annotation Yes Yes ??? Rich
Pseudoknots support Yes No ??? No
Non canonical Yes No No No
Export vector SVG, EPS, XFIG PS* ??? PS*, XRNA
Export pixel JPEG, PNG - ??? JPG
Input formats RNAML, CT, BPSeq, Vienna SKL, ALI, STR Internal XRNA
Output formats CT, BPSeq, Vienna STR ??? -
Platforms All (JAVA) All (Tcl/Tk) All (JAVA) All (JAVA)
Applet Yes No Yes No
Non-interactive version Yes No No No
Note Standalone re-usable component *Postscript support through 'Print/To File' Looks very similar to VARNA, but no longer supported by default applet security policies. Doesn't run as a standalone application. *Postscript support through 'Print/To File'



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