trans.roc
Class PWMScoreWindows

java.lang.Object
  trans.roc.PWMScoreWindows

public class PWMScoreWindows

extends java.lang.Object

Scores windows for hits to a transcription factor PWM, for RocWindow filtering.

Constructor Summary

PWMScoreWindows(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 varibles
void	setGenomicSequenceParams() Loads up the fasta file for a particular chromosome and sets some params.

Methods inherited from class java.lang.Object

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

Constructor Detail

PWMScoreWindows

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

Method Detail

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 varibles

setGenomicSequenceParams

public void setGenomicSequenceParams()

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

printDocs

public static void printDocs()