Package fr.ens.biologie.genomique.eoulsan.modules.expression

Class FinalExpressionFeaturesCreator

java.lang.Object

fr.ens.biologie.genomique.eoulsan.modules.expression.FinalExpressionFeaturesCreator

public class FinalExpressionFeaturesCreator
extends Object

This class generates the final expression file after counting the alignments for each feature with HTSeq-count.

Since:

1.2

Author:

Claire Wallon

Constructor Summary

Constructors

Constructor	Description
FinalExpressionFeaturesCreator(fr.ens.biologie.genomique.kenetre.bio.expressioncounter.ExpressionCounter counter)	Public constructor.

Method Summary

Modifier and Type	Method	Description
void	initializeExpressionResults()	Clear.
void	loadPreResults(File preResultFile)	Load pre result file.
void	loadPreResults(InputStream is)	Load pre-result file.
void	saveFinalResults(File resultFile)	Save the final results.
void	saveFinalResults(OutputStream os)	Save the final results.

Methods inherited from class java.lang.Object

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

Constructor Detail

FinalExpressionFeaturesCreator

public FinalExpressionFeaturesCreator(fr.ens.biologie.genomique.kenetre.bio.expressioncounter.ExpressionCounter counter)

Public constructor.

Parameters:

counter - the counter

Method Detail

initializeExpressionResults

public void initializeExpressionResults()

Clear.

loadPreResults

public void loadPreResults(File preResultFile)
                    throws IOException

Load pre result file.

Parameters:

preResultFile - pre-result file

Throws:

IOException - if an error occurs while reading data

loadPreResults

public void loadPreResults(InputStream is)
                    throws IOException

Load pre-result file.

Parameters:

is - input stream of pre-results

Throws:

IOException - if an error occurs while reading data

saveFinalResults

public void saveFinalResults(File resultFile)
                      throws IOException

Save the final results.

Parameters:

resultFile - output result file

Throws:

IOException - if an error occurs while writing data

saveFinalResults

public void saveFinalResults(OutputStream os)
                      throws IOException

Save the final results.

Parameters:

os - output stream

Throws:

IOException - if an error occurs while writing data