Uses of Class
net.sourceforge.cilib.bioinf.rnaprediction.RNAStem

Packages that use RNAStem

net.sourceforge.cilib.bioinf.rnaprediction

Uses of RNAStem in net.sourceforge.cilib.bioinf.rnaprediction

Methods in net.sourceforge.cilib.bioinf.rnaprediction that return RNAStem

RNAStem

RNAStem.getClone()

Methods in net.sourceforge.cilib.bioinf.rnaprediction that return types with arguments of type RNAStem

ArrayList<RNAStem>	StemGenerator.generateStems(String nucleotides, Boolean generateSubstems)
ArrayList<RNAStem>	StemGenerator.getAllStems()
ArrayList<RNAStem>	RNAStem.getConflictingStems()

Methods in net.sourceforge.cilib.bioinf.rnaprediction with parameters of type RNAStem

int	RNAStem.compareTo(RNAStem o)
boolean	RNAStem.conflictsWith(RNAStem otherstem) Uses the StemConflictTable Singleton class to look up conflicts quicker.
boolean	RNAStem.slowConflictsWith(RNAStem otherstem) returns true if the stems fail all of four tests.

Method parameters in net.sourceforge.cilib.bioinf.rnaprediction with type arguments of type RNAStem

Double	MathewsFitness.getRNAFitness(Set<RNAStem> stems)
void	RNAStem.setConflictingStems(ArrayList<RNAStem> conflicts)