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

Class PairwiseSeqDistance

  • public class PairwiseSeqDistance
extends java.lang.Object

    • Constructor Summary

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

    • Method Summary

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