Python overlapAlignment Examples

Example #1

 def testOverlapAlignmentFromFile(self):
     with open('data/sequencing/overlapAlignment.txt') as fp:
         seqs = [l.strip() for l in fp.readlines()]
         score, align1, align2 = overlapAlignment(seqs[0], seqs[1])
         print score
         print align1
         print align2

Example #2

File: sequencing_test.py Project: AndyBowes/stepicproblems

 def testOverlapAlignmentFromFile(self):
     with open('data/sequencing/overlapAlignment.txt') as fp:
         seqs = [l.strip() for l in fp.readlines()]
         score, align1, align2 = overlapAlignment(seqs[0], seqs[1])
         print score
         print align1
         print align2

Example #3

 def testOverlapAlignment(self):
     score, align1, align2 = overlapAlignment('PAWHEAE', 'HEAGAWGHEE')
     self.assertEqual(1, score)
     self.assertEqual('PAWHEAE------', align1)
     self.assertEqual('---HEAGAWGHEE', align2)

Example #4

File: sequencing_test.py Project: AndyBowes/stepicproblems

 def testOverlapAlignment(self):
     score, align1, align2 = overlapAlignment('PAWHEAE', 'HEAGAWGHEE')
     self.assertEqual(1, score)
     self.assertEqual('PAWHEAE------', align1)
     self.assertEqual('---HEAGAWGHEE', align2)