License: Freeware
Downloads: 0
Op. System: Windows XP/2000/98
Last updated: 2011-08-23
File size: 440 KB
Publisher: Kevin Darty,Alain Denise

Publisher description for VARNA

VARNA program icon

VARNA is 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. Being free of fancy external Library dependency and/or network access, the VARNA Applet can be used as a base for a standalone applet. It looks reasonably good and scales up or down nicely to ADAPT to the space available on a web PaGE, thanks to the anti-aliasing drawing primitives of Swing. Features: *Automatically scaled, anti-aliased smooth rendering *Support provided for input files in BPSEQ, CT, Vienna (DBN: dot bracket notation) or RNAML formats *Export of snapshots in vector and bitmap picture formats: EPS, SVG, XFIG, JPG, or PNG. *Fully-customizable, through a documented API for the component, or a set of documented ""-type options for the Applet version *Platform and browser iNdependence (Only requires the installation of a version 1.5 of the Java plugin *Support of non-canonical basepairs using the Leontis/Westhof nomenclature. Pseudoknotted structures are processed by first extracting a maximal planar subset of canonical base-pairs, draw the subset and use it as a scaffold for the rest of the base pairings. *Provides real time user interaction and full display customization. *Displays multiple secondary structures on a single Applet, saving precious computational ressources. *Supports semi-automated annotation of individual structural parts, color maps and chemical-probing style of annotations.

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