Class TestCasesApplySnp
java.lang.Object
org.snpeff.snpEffect.testCases.unity.TestCasesBase
org.snpeff.snpEffect.testCases.unity.TestCasesBaseApply
org.snpeff.snpEffect.testCases.unity.TestCasesApplySnp
Test cases: apply a variant (SNP) to a transcript
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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
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
Variant before exonvoid
Variant ending right before exon startvoid
Variant at exon startvoid
Variant in exonvoid
Variant right before exon endvoid
Variant right after exon endvoid
Variant after exon endMethods inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBaseApply
initSnpEffPredictor
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, path, pathClassName, prependSequenceToFirstExon
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Constructor Details
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TestCasesApplySnp
public TestCasesApplySnp()
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Method Details
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test_apply_variant_01
@Test public void test_apply_variant_01()Variant before exon -
test_apply_variant_02
@Test public void test_apply_variant_02()Variant ending right before exon start -
test_apply_variant_04
@Test public void test_apply_variant_04()Variant at exon start -
test_apply_variant_05
@Test public void test_apply_variant_05()Variant in exon -
test_apply_variant_06
@Test public void test_apply_variant_06()Variant right before exon end -
test_apply_variant_08
@Test public void test_apply_variant_08()Variant right after exon end -
test_apply_variant_09
@Test public void test_apply_variant_09()Variant after exon end
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