org.forester.archaeopteryx.tools

Class PhylogeneticInferrer

java.lang.Object

org.forester.archaeopteryx.tools.RunnableProcess

org.forester.archaeopteryx.tools.PhylogeneticInferrer

All Implemented Interfaces:

java.lang.Runnable

public class PhylogeneticInferrer
extends RunnableProcess

Field Summary

Fields

Modifier and Type	Field and Description
static java.lang.String	MSA_FILE_SUFFIX
static java.lang.String	PWD_FILE_SUFFIX

Constructor Summary

Constructors

Constructor and Description
PhylogeneticInferrer(java.util.List<Sequence> seqs, PhylogeneticInferenceOptions options, MainFrameApplication mf)
PhylogeneticInferrer(Msa msa, PhylogeneticInferenceOptions options, MainFrameApplication mf)

Method Summary

Methods

Modifier and Type	Method and Description
static void	extractFastaInformation(Phylogeny phy)
void	run()

Methods inherited from class org.forester.archaeopteryx.tools.RunnableProcess

end, start

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

MSA_FILE_SUFFIX

public static final java.lang.String MSA_FILE_SUFFIX

See Also:

Constant Field Values

PWD_FILE_SUFFIX

public static final java.lang.String PWD_FILE_SUFFIX

See Also:

Constant Field Values

Constructor Detail

PhylogeneticInferrer

public PhylogeneticInferrer(java.util.List<Sequence> seqs,
                    PhylogeneticInferenceOptions options,
                    MainFrameApplication mf)

PhylogeneticInferrer

public PhylogeneticInferrer(Msa msa,
                    PhylogeneticInferenceOptions options,
                    MainFrameApplication mf)

Method Detail

run

public void run()

extractFastaInformation

public static void extractFastaInformation(Phylogeny phy)