util.bio.parsers
Class QualityFileParser

java.lang.Object
  util.bio.parsers.QualityFileParser

public class QualityFileParser

extends java.lang.Object

This class will read in combine quality files associated with raw sequencing results, skips blank lines, parses off the > character. Quals and names are index matched, ie qual[3] and names[3] refer to the same thing.

Constructor Summary

QualityFileParser(java.lang.String file)

Method Summary

java.lang.String	getFileName()
java.lang.String[]	getNames()
java.lang.String[]	getQuals()
void	printMFP()
void	printReport()

Methods inherited from class java.lang.Object

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

Constructor Detail

QualityFileParser

public QualityFileParser(java.lang.String file)

Method Detail

printMFP

public void printMFP()

printReport

public void printReport()

getQuals

public java.lang.String[] getQuals()

getNames

public java.lang.String[] getNames()

getFileName

public java.lang.String getFileName()