TestCasesApplySnp (Snp Effect 4.3t API)

java.lang.Object
- org.snpeff.snpEffect.testCases.unity.TestCasesBase
- - org.snpeff.snpEffect.testCases.unity.TestCasesBaseApply
  - - org.snpeff.snpEffect.testCases.unity.TestCasesApplySnp

public class TestCasesApplySnp
extends TestCasesBaseApply

Test cases: apply a variant (SNP) to a transcript

Field Summary
- 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

Constructor Summary

Constructors
Constructor Description

TestCasesApplySnp()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`test_apply_variant_01()`	Variant before exon
`void`	`test_apply_variant_02()`	Variant ending right before exon start
`void`	`test_apply_variant_04()`	Variant at exon start
`void`	`test_apply_variant_05()`	Variant in exon
`void`	`test_apply_variant_06()`	Variant right before exon end
`void`	`test_apply_variant_08()`	Variant right after exon end
`void`	`test_apply_variant_09()`	Variant after exon end

Methods 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, prependSequenceToFirstExon, showTranscripts

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - TestCasesApplySnp
```
public TestCasesApplySnp()
```
- Method Detail
  - test_apply_variant_01
```
public void test_apply_variant_01()
```
    Variant before exon
  - test_apply_variant_02
```
public void test_apply_variant_02()
```
    Variant ending right before exon start
  - test_apply_variant_04
```
public void test_apply_variant_04()
```
    Variant at exon start
  - test_apply_variant_05
```
public void test_apply_variant_05()
```
    Variant in exon
  - test_apply_variant_06
```
public void test_apply_variant_06()
```
    Variant right before exon end
  - test_apply_variant_08
```
public void test_apply_variant_08()
```
    Variant right after exon end
  - test_apply_variant_09
```
public void test_apply_variant_09()
```
    Variant after exon end