Class TestCasesCds
- java.lang.Object
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- org.snpeff.snpEffect.testCases.unity.TestCasesBase
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- org.snpeff.snpEffect.testCases.unity.TestCasesCds
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public class TestCasesCds extends TestCasesBase
Test random SNP changes- Author:
- pcingola
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Field Summary
Fields Modifier and Type Field Description static int
N
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Fields inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
addUtrs, chromoBases, chromoSequence, chromosome, codonTable, config, debug, gene, genome, genomeName, maxExons, maxGeneLen, maxTranscripts, minExons, numGenes, onlyMinusStrand, onlyPlusStrand, rand, randSeed, shiftHgvs, snpEffectPredictor, spliceRegionExonSize, spliceRegionIntronMax, spliceRegionIntronMin, transcript, verbose
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Constructor Summary
Constructors Constructor Description TestCasesCds()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description protected void
init()
void
test_CdsPos()
void
test_cdsStartEnd_1()
Simple CDS start & CSD end casevoid
test_cdsStartEnd_2()
CDS start & CSD end case where transcript is ALL UTR (nothing codes, presumably because of a database annotation error)-
Methods inherited from class org.snpeff.snpEffect.testCases.unity.TestCasesBase
after, before, checkApply, checkApplyDel, checkApplyIns, checkApplyMixed, checkApplyMnp, checkApplySnp, checkEffect, checkEffect, formatVersion, hasEffect, initRand, initSnpEffPredictor, initSnpEffPredictor, prependSequenceToFirstExon, showTranscripts
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Method Detail
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init
protected void init()
- Overrides:
init
in classTestCasesBase
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test_CdsPos
public void test_CdsPos()
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test_cdsStartEnd_1
public void test_cdsStartEnd_1()
Simple CDS start & CSD end case
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test_cdsStartEnd_2
public void test_cdsStartEnd_2()
CDS start & CSD end case where transcript is ALL UTR (nothing codes, presumably because of a database annotation error)
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