Class TestCasesAnn
- java.lang.Object
-
- org.snpeff.snpEffect.testCases.unity.TestCasesBase
-
- org.snpeff.snpEffect.testCases.integration.TestCasesAnn
-
public class TestCasesAnn extends TestCasesBase
Test case
-
-
Field Summary
-
Fields inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
addUtrs, BASE_DIR, chromoBases, chromoSequence, chromosome, codonTable, config, debug, gene, genome, genomeName, maxExons, maxGeneLen, maxTranscripts, minExons, numGenes, onlyMinusStrand, onlyPlusStrand, prefixes, rand, randSeed, shiftHgvs, snpEffectPredictor, spliceRegionExonSize, spliceRegionIntronMax, spliceRegionIntronMin, testType, transcript, verbose
-
-
Constructor Summary
Constructors Constructor Description TestCasesAnn()
-
Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
test_01_Annotation_Stop()
void
test_01_VcfRawAlt()
Check that RAW alt fields are kept in 'Allele/Genotype'void
test_02_Annotation_SpliceRegion()
void
test_03_Annotation_NonSyn()
void
test_04_Annotation_Intergenic()
void
test_05_Annotation_EndOfChromosome()
-
Methods inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
after, before, checkApply, checkApplyDel, checkApplyIns, checkApplyMixed, checkApplyMnp, checkApplySnp, checkEffect, checkEffect, formatVersion, hasEffect, init, initRand, initSnpEffPredictor, initSnpEffPredictor, path, pathClassName, prependSequenceToFirstExon
-
-
-
-
Method Detail
-
test_01_Annotation_Stop
@Test public void test_01_Annotation_Stop()
-
test_01_VcfRawAlt
@Test public void test_01_VcfRawAlt()
Check that RAW alt fields are kept in 'Allele/Genotype'
-
test_02_Annotation_SpliceRegion
@Test public void test_02_Annotation_SpliceRegion()
-
test_03_Annotation_NonSyn
@Test public void test_03_Annotation_NonSyn()
-
test_04_Annotation_Intergenic
@Test public void test_04_Annotation_Intergenic()
-
test_05_Annotation_EndOfChromosome
@Test public void test_05_Annotation_EndOfChromosome()
-
-