Script Documentation (devel)

 

 

== Class LibVrna185 ==

Encapsulates the Vienna Package version 1.8.5

 

=== LibVrna185.fold(sequence) ===

returns the Minimum Free Energy structure for the sequence passed as parameter.

 

=== LibVrna185.energyOfStruct(sequence, secstruct) ===

returns the free energy for the given sequence/secondray structure.

 

=== LibVrna185.foldWithConstraint(sequence, constraint) ===

returns the Minimum Free Energy structure for the sequence passed as parameter, with constraints applied

 

=== Example ===

 

var vrna = new LibVrna185;

var seq = 'CCCCGAAAGGGG';
var retval = vrna.fold( seq );
outln( seq );
outln( retval.mfe_structure );
outln( retval.free_energy );

delete vrna;

 

 

== Class LibVrna211 ==

Encapsulates the Vienna Package version 2.1.1

 

=== LibVrna211.fold(sequence) ===

returns the Minimum Free Energy structure for the sequence passed as parameter.

 

=== LibVrna211.energyOfStruct(sequence, secstruct) ===

returns the free energy for the given sequence/secondray structure.

 

=== LibVrna211.foldWithConstraint(sequence, constraint) ===

returns the Minimum Free Energy structure for the sequence passed as parameter, with constraints applied

 

=== Example ===

 

var vrna = new LibVrna211;

var seq = 'CCCCGAAAGGGG';
var retval = vrna.fold( seq );
outln( seq );
outln( retval.mfe_structure );
outln( retval.free_energy );

var constraint = '...x....x...';
retval = vrna.foldWithConstraint( seq, constraint );
outln( seq );
outln( constraint );
outln( retval.mfe_structure );
outln( retval.free_energy );

delete vrna;