Ejemplos de create_2_base_sub en Python

Ejemplo n.º 1

Archivo: test_vcf_to_fasta.py Proyecto: johnchase/wilder_lab

 def test_create_2_base_sub8(self): 
     alleles = [0, 1]
     ref = 'CTTTTGACTCCCCAAAACTTAATATTTAGCCTATACTTGACTAGAAGTCTTACTGATGACATAATGTTCGTTAATACATATTTTATATATGTGTCAGATAGCATATTTGTATAATAAAGTAAGCTGCAGGAAAAATATTAAAATCATAAAGAAGAGAAAATATACTTACTATTCATTAAGTGGAAGTGGATCCTCATAAAGGTCTTCATCCTCACTGCCTTCACTTTGAGTAGGCCGAGGAGTAGGAGAGAGAGGAAAGGTCAGACTTGCTGTCTCATGGGTGGCAGAGGTAGAAGAAGGTCCACATACAAGTGGTCCGACACAGCTCAAACCGGTTTTGTTCATTGGCCAACTGTAGTTTGATTGAAAGTAATAATAAATGAAGTTTCTGCCTCAGTTCAGTATTATCAAGTCATAGATAGCAAGGGCTGGAAGAAACCTTAGTAGTAATCTCTTTGAGTCTAATTATCATGTAGAATAGGAAATTGCGGTCTAGAAAGGTTAAGTGACTTGTCCAAATTACACAACTAGTTAGAGACATAGCCAGCTCTTAAATCTGACTTCCAGATTTTCACTGTGTCTTCTTTTTTCTGTAACGTGTTGCCTTTTTTAGCCATGAAAAATTAGAAGTTGAACTCTTGTCTTTTCAGGCAGGTGTCAATTTTGGGGTTTTGTTTTGATTTTTGGTTTTTGACATAAAGTACTTTAGTTCTGTGATGTATAAACCGTGAGTTTCTGTTTTTCTCATATACCTGAATACTGTCCATGTGGAAGTTACCTTTTATCTTTACCAGTATTAACACATAAATGGTTATACATAAATACATTGACCACCTTTTATTACTCCAGCTATAGTGGGGAAAACTTTCTTTTCATAACTAGCTAATGTTTTAAAAAGTA'    
     alt = 'C' 
     expected = ['CTTTTGACTCCCCAAAACTTAATATTTAGCCTATACTTGACTAGAAGTCTTACTGATGACATAATGTTCGTTAATACATATTTTATATATGTGTCAGATAGCATATTTGTATAATAAAGTAAGCTGCAGGAAAAATATTAAAATCATAAAGAAGAGAAAATATACTTACTATTCATTAAGTGGAAGTGGATCCTCATAAAGGTCTTCATCCTCACTGCCTTCACTTTGAGTAGGCCGAGGAGTAGGAGAGAGAGGAAAGGTCAGACTTGCTGTCTCATGGGTGGCAGAGGTAGAAGAAGGTCCACATACAAGTGGTCCGACACAGCTCAAACCGGTTTTGTTCATTGGCCAACTGTAGTTTGATTGAAAGTAATAATAAATGAAGTTTCTGCCTCAGTTCAGTATTATCAAGTCATAGATAGCAAGGGCTGGAAGAAACCTTAGTAGTAATCTCTTTGAGTCTAATTATCATGTAGAATAGGAAATTGCGGTCTAGAAAGGTTAAGTGACTTGTCCAAATTACACAACTAGTTAGAGACATAGCCAGCTCTTAAATCTGACTTCCAGATTTTCACTGTGTCTTCTTTTTTCTGTAACGTGTTGCCTTTTTTAGCCATGAAAAATTAGAAGTTGAACTCTTGTCTTTTCAGGCAGGTGTCAATTTTGGGGTTTTGTTTTGATTTTTGGTTTTTGACATAAAGTACTTTAGTTCTGTGATGTATAAACCGTGAGTTTCTGTTTTTCTCATATACCTGAATACTGTCCATGTGGAAGTTACCTTTTATCTTTACCAGTATTAACACATAAATGGTTATACATAAATACATTGACCACCTTTTATTACTCCAGCTATAGTGGGGAAAACTTTCTTTTCATAACTAGCTAATGTTTTAAAAAGTA', 'C-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------']
     self.assertEqual(create_2_base_sub(alleles, ref, alt), expected)

Ejemplo n.º 2

Archivo: test_vcf_to_fasta.py Proyecto: johnchase/wilder_lab

 def test_create_2_base_sub5(self): 
     alleles = [0, 1]
     ref = 'TC' 
     alt = 'TG, T' 
     expected = ['TC', 'TG']
     self.assertEqual(create_2_base_sub(alleles, ref, alt), expected)

Ejemplo n.º 3

Archivo: test_vcf_to_fasta.py Proyecto: johnchase/wilder_lab

 def test_create_2_base_sub7(self): 
     alleles = [0, 1]
     ref = 'TCG'    
     alt = '., T, TCAG' 
     expected = ['TC-G', '----']
     self.assertEqual(create_2_base_sub(alleles, ref, alt), expected)

Ejemplo n.º 4

Archivo: test_vcf_to_fasta.py Proyecto: johnchase/wilder_lab

 def test_create_2_base_sub1(self): 
     alleles = [0, 1]
     ref = 'C' 
     alt = 'G' 
     expected = ['C', 'G']
     self.assertEqual(create_2_base_sub(alleles, ref, alt), expected)