umcg.genetica.io.trityper.bin

Class BinaryResultDataset

java.lang.Object

umcg.genetica.io.trityper.bin.BinaryResultDataset

public class BinaryResultDataset
extends Object

Author:

harmjan

Constructor Summary

Constructors

Constructor and Description
BinaryResultDataset(String location, String name, int permutation)

Method Summary

Modifier and Type	Method and Description
void	clearProbeObjects()
void	close()
void	closeMatrix()
String	getM_location()
String	getM_name()
BinaryGZipFloatMatrix	getMatrix()
float	getMaxfloat()
int	getMaxNrSamples()
float	getMinfloat()
int	getNumProbes()
BinaryResultProbe[]	getProbes()
BinaryResultSNP[]	getSnps()
HashMap<String,BinaryResultProbe>	getStringToProbe()
HashMap<String,BinaryResultSNP>	getStringToSNP()
void	openMatrix(int permutation)
Float[]	readSNPZScores(BinaryResultSNP snp)
void	setM_location(String m_location)
void	setM_name(String m_name)
void	setMaxfloat(float maxfloat)
void	setMinfloat(float minfloat)
void	setProbes(BinaryResultProbe[] probes)
void	setSnps(BinaryResultSNP[] snps)
void	setStringToProbe(HashMap<String,BinaryResultProbe> stringToProbe)
void	setStringToSNP(HashMap<String,BinaryResultSNP> stringToSNP)

Methods inherited from class java.lang.Object

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

Constructor Detail

BinaryResultDataset

public BinaryResultDataset(String location,
                           String name,
                           int permutation)
                    throws IOException

Throws:

IOException

Method Detail

closeMatrix

public void closeMatrix()
                 throws IOException

Throws:

IOException

openMatrix

public void openMatrix(int permutation)
                throws IOException

Throws:

IOException

getM_name

public String getM_name()

Returns:

the m_name

setM_name

public void setM_name(String m_name)

Parameters:

m_name - the m_name to set

getM_location

public String getM_location()

Returns:

the m_location

setM_location

public void setM_location(String m_location)

Parameters:

m_location - the m_location to set

getSnps

public BinaryResultSNP[] getSnps()

Returns:

the snps

setSnps

public void setSnps(BinaryResultSNP[] snps)

Parameters:

snps - the snps to set

getStringToSNP

public HashMap<String,BinaryResultSNP> getStringToSNP()

Returns:

the stringToSNP

setStringToSNP

public void setStringToSNP(HashMap<String,BinaryResultSNP> stringToSNP)

Parameters:

stringToSNP - the stringToSNP to set

getProbes

public BinaryResultProbe[] getProbes()

Returns:

the probes

setProbes

public void setProbes(BinaryResultProbe[] probes)

Parameters:

probes - the probes to set

getStringToProbe

public HashMap<String,BinaryResultProbe> getStringToProbe()

Returns:

the stringToProbe

setStringToProbe

public void setStringToProbe(HashMap<String,BinaryResultProbe> stringToProbe)

Parameters:

stringToProbe - the stringToProbe to set

getMatrix

public BinaryGZipFloatMatrix getMatrix()

getNumProbes

public int getNumProbes()

getMaxNrSamples

public int getMaxNrSamples()

readSNPZScores

public Float[] readSNPZScores(BinaryResultSNP snp)
                       throws IOException,
                              DataFormatException

Throws:

IOException

DataFormatException

getMaxfloat

public float getMaxfloat()

Returns:

the maxfloat

setMaxfloat

public void setMaxfloat(float maxfloat)

Parameters:

maxfloat - the maxfloat to set

getMinfloat

public float getMinfloat()

Returns:

the minfloat

setMinfloat

public void setMinfloat(float minfloat)

Parameters:

minfloat - the minfloat to set

clearProbeObjects

public void clearProbeObjects()

close

public void close()
           throws IOException

Throws:

IOException