info.bioinfweb.libralign.pherogram

Class PherogramUtils

java.lang.Object

info.bioinfweb.libralign.pherogram.PherogramUtils

public class PherogramUtils
extends java.lang.Object

provides values for constants of PherogramProvider and general tool methods to deal with pherogram data.

Since:

0.1.0

Author:

Ben Stöver

Constructor Summary

Constructors

Constructor and Description
PherogramUtils()

Method Summary

Modifier and Type	Method and Description
static java.util.Set<java.lang.String>	createProbabilityLabelsList()
static java.util.Set<java.lang.Character>	createTraceCurveNucleotideList()
static int	getFirstTracePosition(PherogramProvider provider, int baseCallIndex) Returns the index of the first trace value in the area of a trace curve belonging the base call with the specified index.

Methods inherited from class java.lang.Object

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

Constructor Detail

PherogramUtils

public PherogramUtils()

Method Detail

getFirstTracePosition

public static int getFirstTracePosition(PherogramProvider provider,
                                        int baseCallIndex)

Returns the index of the first trace value in the area of a trace curve belonging the base call with the specified index.

Parameters:

provider - the provider of the pherogram data

baseCallIndex - the index of the base call

Returns:

a valid trace value index

createTraceCurveNucleotideList

public static java.util.Set<java.lang.Character> createTraceCurveNucleotideList()

createProbabilityLabelsList

public static java.util.Set<java.lang.String> createProbabilityLabelsList()