Package fr.ens.biologie.genomique.aozan.tests.sample

Interface SampleTest

All Superinterfaces:

AozanTest

All Known Implementing Classes:

AbstractFastQCSampleTest, AbstractSampleTest, AbstractSimpleSampleTest, BasePFMeanQualityScoreSampleTest, ClusterRecoveryReportSampleTest, FastQCAdapterContentSampleTest, FastQCBasicStatsSampleTest, FastQCDuplicationLevelSampleTest, FastQCKmerContentSampleTest, FastQCNContentSampleTest, FastQCOverrepresentedSequencesSampleTest, FastQCPerBaseQualityScoresSampleTest, FastQCPerBaseSequenceContentSampleTest, FastQCPerSequenceGCContentSampleTest, FastQCPerSequenceQualityScoresSampleTest, FastQCPerTileSequenceQualitySampleTest, FastQCSequenceLengthDistributionSampleTest, FastQScreenMappedExceptRefGenomeSampleTest, FastQScreenMappedPercentSampleTest, FastQScreenReportSampleTest, GenomeNamesSampleTest, InLanePercentSampleTest, PFClusterCountSampleTest, PFPercentSampleTest, Q30PercentSampleTest, RawClusterCountSampleTest, RecoverablePFClusterCountSampleTest, RecoverablePFClusterPercentSampleTest, RecoverableRawClusterCountSampleTest, RecoverableRawClusterPercentSampleTest

public interface SampleTest
extends AozanTest

This interface define sample test.

Since:

0.8

Author:

Laurent Jourdren

Method Summary

Modifier and Type	Method	Description
TestResult	test(RunData data, int read, int readSample, int sampleId)	Do a test.

Methods inherited from interface fr.ens.biologie.genomique.aozan.tests.AozanTest

configure, getCollectorsNamesRequiered, getColumnName, getDescription, getName, getUnit, init

Method Detail

test

TestResult test(RunData data,
                int read,
                int readSample,
                int sampleId)

Do a test.

Parameters:

data - result object

read - index of read

readSample - index of read without indexed reads

sampleId - the sample id of the sample to test.

Returns:

a TestResult object with the result of the test