Class TestCasesApplyMixed
java.lang.Object
org.snpeff.snpEffect.testCases.unity.TestCasesBase
org.snpeff.snpEffect.testCases.unity.TestCasesBaseApply
org.snpeff.snpEffect.testCases.unity.TestCasesApplyMixed
Test cases: apply a variant (MIXED) 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 before exonvoid
Variant before exonvoid
Variant before exonvoid
Variant overlapping exon startvoid
Variant overlapping exon startvoid
Variant at exon startvoid
Variant at exon startvoid
Variant in exonvoid
Variant in exonvoid
Variant in exonvoid
Variant in exonvoid
Variant overlapping exon endvoid
Variant overlapping exon endvoid
Variant right after exon endvoid
Variant right after exon endvoid
Variant 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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TestCasesApplyMixed
public TestCasesApplyMixed()
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Method Details
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test_apply_variant_01_longer
@Test public void test_apply_variant_01_longer()Variant before exon -
test_apply_variant_01_shorter
@Test public void test_apply_variant_01_shorter()Variant before exon -
test_apply_variant_02_longer
@Test public void test_apply_variant_02_longer()Variant before exon -
test_apply_variant_02_shorter
@Test public void test_apply_variant_02_shorter()Variant before exon -
test_apply_variant_03_longer
@Test public void test_apply_variant_03_longer()Variant overlapping exon start -
test_apply_variant_03_shorter
@Test public void test_apply_variant_03_shorter()Variant overlapping exon start -
test_apply_variant_04_longer
@Test public void test_apply_variant_04_longer()Variant at exon start -
test_apply_variant_04_shorter
@Test public void test_apply_variant_04_shorter()Variant at exon start -
test_apply_variant_05_longer
@Test public void test_apply_variant_05_longer()Variant in exon -
test_apply_variant_05_shorter
@Test public void test_apply_variant_05_shorter()Variant in exon -
test_apply_variant_06_longer
@Test public void test_apply_variant_06_longer()Variant in exon -
test_apply_variant_06_shorter
@Test public void test_apply_variant_06_shorter()Variant in exon -
test_apply_variant_07_longer
@Test public void test_apply_variant_07_longer()Variant overlapping exon end -
test_apply_variant_07_shorter
@Test public void test_apply_variant_07_shorter()Variant overlapping exon end -
test_apply_variant_08_longer
@Test public void test_apply_variant_08_longer()Variant right after exon end -
test_apply_variant_08_shorter
@Test public void test_apply_variant_08_shorter()Variant right after exon end -
test_apply_variant_09_longer
@Test public void test_apply_variant_09_longer()Variant after exon end -
test_apply_variant_09_shorter
@Test public void test_apply_variant_09_shorter()Variant after exon end
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