Wikiomics:Alignment visualization and plotting RNA structures: Difference between revisions
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* [http://smi-web.stanford.edu/projects/helix/sstructview/home.html SStructView] a Java applet for viewing RNA secondary structures and linking to multiple computational backends. | * [http://smi-web.stanford.edu/projects/helix/sstructview/home.html SStructView] a Java applet for viewing RNA secondary structures and linking to multiple computational backends. | ||
* [http://binkley.ncifcrf.gov/~bshapiro/structurelab/structureLab.html StructureLab] An integrated graphical software tool for predicting, plotting and analyzing RNA secondary structures. | * [http://binkley.ncifcrf.gov/~bshapiro/structurelab/structureLab.html StructureLab] An integrated graphical software tool for predicting, plotting and analyzing RNA secondary structures. | ||
* [http://varna.lri.fr/index.html VARNA] A Java lightweight Applet dedicated to drawing the secondary structure of RNA. It is also a Swing component that can be very easily included in an existing Java code working with RNA secondary structure to provide a fast and interactive visualization. | |||
* [http://rna.ucsc.edu/rnacenter/xrna/xrna.html XRNA] a Java based suite of tools for the creation, annotation and display of RNA secondary structure diagrams. | * [http://rna.ucsc.edu/rnacenter/xrna/xrna.html XRNA] a Java based suite of tools for the creation, annotation and display of RNA secondary structure diagrams. | ||
Latest revision as of 15:53, 20 August 2010
RNA Alignment visualization
- 4SALE A tool for Synchronous RNA Sequence and Secondary Structure Alignment and Editing.
- ConStruct Multipurpose tool for alignment editing, secondary structure prediction and visualizing RNA alignments (new version).
- RALEE RNA ALignment Editor in Emacs.
Plotting RNA structures
- loopDloop a tool for drawing RNA secondary structures in molecular biology.
- jViz.Rna a Java application for visualizing and annotating RNA Secondary Structures
- NAVIEW A group of programs and scripts that produce plots of RNA secondary structures. (Link Broken)
- PseudoViewer Automatically visualizing RNA pseudoknot structures as planar graphs. Needs Windows .NET Framework for "in web" use, else exe is available.
- RNAdraw an integrated program for RNA secondary structure calculation and analysis under 32-bit Microsoft Windows
- RNAfamily A simple software tool that enables the display of all secondary structures for a family of RNA molecules. Uses a linear backbone representation.
- RNAmovies a system for the visualization of RNA secondary structure spaces.
- RNAplot Draw RNA Secondary Structures. Available formats are: PostScript (ps), Graph Meta Language (gml), Scalage Vector Graphics (svg), and XRNA save file (xrna).
- RNAView/RnamlView generates 2-dimensional displays of RNA/DNA secondary structures with tertiary interactions.
- RnaViz A user-friendly, portable, GUI program for producing publication-quality secondary structure drawings of RNA molecules.
- SStructView a Java applet for viewing RNA secondary structures and linking to multiple computational backends.
- StructureLab An integrated graphical software tool for predicting, plotting and analyzing RNA secondary structures.
- VARNA A Java lightweight Applet dedicated to drawing the secondary structure of RNA. It is also a Swing component that can be very easily included in an existing Java code working with RNA secondary structure to provide a fast and interactive visualization.
- XRNA a Java based suite of tools for the creation, annotation and display of RNA secondary structure diagrams.
