edu.msu.cme.rdp.classifier.train.validation.distance

Class PairwiseSeqDistance

java.lang.Object

edu.msu.cme.rdp.classifier.train.validation.distance.PairwiseSeqDistance

public class PairwiseSeqDistance
extends java.lang.Object

Constructor Summary

Constructors

Constructor and Description
PairwiseSeqDistance(java.lang.String trainseqFile, java.lang.String taxFile, edu.msu.cme.rdp.alignment.AlignmentMode mode, boolean show_alignment)

Method Summary

Modifier and Type	Method and Description
static void	main(java.lang.String[] args) This program does the pairwise alignment between each pair of sequences, reports a summary of the average distances and the stdev at each rank.
void	printSummary(java.io.PrintStream outStream)

Methods inherited from class java.lang.Object

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

Constructor Detail

PairwiseSeqDistance

public PairwiseSeqDistance(java.lang.String trainseqFile,
                           java.lang.String taxFile,
                           edu.msu.cme.rdp.alignment.AlignmentMode mode,
                           boolean show_alignment)
                    throws java.io.IOException,
                           edu.msu.cme.rdp.alignment.pairwise.rna.OverlapCheckFailedException

Throws:

java.io.IOException

edu.msu.cme.rdp.alignment.pairwise.rna.OverlapCheckFailedException

Method Detail

printSummary

public void printSummary(java.io.PrintStream outStream)

main

public static void main(java.lang.String[] args)
                 throws java.lang.Exception

This program does the pairwise alignment between each pair of sequences, reports a summary of the average distances and the stdev at each rank.

Parameters:

args -

Throws:

java.lang.Exception