trans.main
Class LoadIntervalOligoInfo

java.lang.Object
  trans.main.LoadIntervalOligoInfo

public class LoadIntervalOligoInfo

extends java.lang.Object

Loads arrays of Interval[] with oligo and sequence information needed for other applications.

Constructor Summary

LoadIntervalOligoInfo(java.lang.String[] args)

Method Summary

static void	main(java.lang.String[] args)
static void	printDocs()
void	processArgs(java.lang.String[] args) This method will process each argument and assign new fields
void	setGenomicSequenceParams(java.lang.String chromosome) Loads up the fasta file for a particular chromosome and sets some params.
static void	sortIntervalsByChromosome(Interval[] intervals) Ugly, ugly, ugly, use a Comparator!

Methods inherited from class java.lang.Object

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

Constructor Detail

LoadIntervalOligoInfo

public LoadIntervalOligoInfo(java.lang.String[] args)

Method Detail

setGenomicSequenceParams

public void setGenomicSequenceParams(java.lang.String chromosome)

Loads up the fasta file for a particular chromosome and sets some params.

main

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

processArgs

public void processArgs(java.lang.String[] args)

This method will process each argument and assign new fields

printDocs

public static void printDocs()

sortIntervalsByChromosome

public static void sortIntervalsByChromosome(Interval[] intervals)

Ugly, ugly, ugly, use a Comparator!