Class TestCasesIntegratioBuildPdb
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- org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
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- org.snpeff.snpEffect.testCases.integration.TestCasesIntegratioBuildPdb
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public class TestCasesIntegratioBuildPdb extends TestCasesIntegrationBase
Test cases for annotation of protein interaction loci
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Field Summary
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Fields inherited from class org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
debug, ignoreErrors, shiftHgvs, SHOW_EVERY, testsDir, verbose
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Constructor Summary
Constructors Constructor Description TestCasesIntegratioBuildPdb()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
test_01()
Interaction within protein using PDB entry '1A12'void
test_02()
Interaction between two proteins PDB entry 4OVU should have an interaction between chains 'A' and 'B' (Min distance :2.45 Angstrom) AA.pos AA chr:pos transcript 22 E 3:178916679 NM_006218.2 533 R 5:67591006 NM_181523.2-
Methods inherited from class org.snpeff.snpEffect.testCases.integration.TestCasesIntegrationBase
appyTranscript, build, buildAndCompare, buildEmbl, buildGeneBank, buildGff3AndCompare, buildGtfAndCompare, checkHgvs, checkNoChange, checkTranscriptError, compareHgvs, compareHgvs, compareVep, compareVepSO, init, loadSnpEffectPredictor, showTranscripts, showTranscripts, snpEffect, snpEffect, snpEffectCancer
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Method Detail
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test_01
public void test_01()
Interaction within protein using PDB entry '1A12'
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test_02
public void test_02()
Interaction between two proteins PDB entry 4OVU should have an interaction between chains 'A' and 'B' (Min distance :2.45 Angstrom) AA.pos AA chr:pos transcript 22 E 3:178916679 NM_006218.2 533 R 5:67591006 NM_181523.2
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