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

Nested Class Summary

Nested Classes
Modifier and Type Class and Description

static class PhylogeneticInferrer.MSA_PRG

Nested Classes
Modifier and Type	Class and Description
`static class`	`PhylogeneticInferrer.MSA_PRG`

Field Summary

Fields
Modifier and Type Field and Description

static java.lang.String MSA_FILE_SUFFIX

static java.lang.String PWD_FILE_SUFFIX

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<MolecularSequence> seqs, PhylogeneticInferenceOptions options, MainFrameApplication mf)`
`PhylogeneticInferrer(Msa msa, PhylogeneticInferenceOptions options, MainFrameApplication mf)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type Method and Description

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

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`void`	`run()`

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<MolecularSequence> seqs,
                            PhylogeneticInferenceOptions options,
                            MainFrameApplication mf)

PhylogeneticInferrer

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

Method Detail
- run
```
public void run()
```

Class PhylogeneticInferrer

Nested Class Summary

Field Summary

Constructor Summary

Method Summary

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

Methods inherited from class java.lang.Object

Field Detail

MSA_FILE_SUFFIX

PWD_FILE_SUFFIX

Constructor Detail

PhylogeneticInferrer

PhylogeneticInferrer

Method Detail

run