util.bio.parsers
Class FetchGenomicSequences

java.lang.Object
  util.bio.parsers.FetchGenomicSequences

public class FetchGenomicSequences

extends java.lang.Object

Fetches the genomic sequences for a list of regions.

Constructor Summary

FetchGenomicSequences(java.lang.String[] arguments)

Method Summary

void	loadSequences()
static void	main(java.lang.String[] args)
static int	numberBases(BindingRegion[] brs)
static void	printDocs()
void	processArgs(java.lang.String[] args) This method will process each argument and assign new varibles
static double[]	statBindingRegionArray(BindingRegion[] brs)

Methods inherited from class java.lang.Object

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

Constructor Detail

FetchGenomicSequences

public FetchGenomicSequences(java.lang.String[] arguments)

Method Detail

loadSequences

public void loadSequences()

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

printDocs

public static void printDocs()

statBindingRegionArray

public static double[] statBindingRegionArray(BindingRegion[] brs)

Returns:

double[2]{total bases,median length}.

numberBases

public static int numberBases(BindingRegion[] brs)

Returns:

total number of bases in the BindingRegion[], end-start+1.