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Package Bio :: Package Wise :: Module psw
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Module Bio.Wise.psw

Classes
Alignment  
AlignmentColumn  
ColumnUnit  

Exceptions
AlignmentColumnFullException  

Function Summary
  align(pair, scores, gap_start, gap_extension, *args, **keywds)
  main()
  parse(iterable)
format
  parse_line(line)

Function Details

parse(iterable)

format

Column 0: Unit 0- [ -1- 0] [SEQUENCE] Unit 1- [ 85- 86] [SEQUENCE]

means that seq1[0] == seq2[86] (0-based)

parse_line(line) 

>>> print parse_line("Column 0:")
None

>>> parse_line("Unit  0- [  -1-   0] [SEQUENCE]")
ColumnUnit(unit=0, column=0, SEQUENCE)

>>> parse_line("Unit  1- [  85-  86] [SEQUENCE]")
ColumnUnit(unit=1, column=86, SEQUENCE)

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