Trees | Index | Help |
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Package Bio :: Package Wise :: Module psw |
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Classes | |
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Alignment |
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AlignmentColumn |
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ColumnUnit |
Exceptions | |
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AlignmentColumnFullException |
Function Summary | |
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align(pair,
scores,
gap_start,
gap_extension,
*args,
**keywds)
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main()
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format | |
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_test(*args,
**keywds)
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Variable Summary | |
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str |
__version__ = '$Revision: 1.3 $'
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list |
_CMDLINE_PSW = ['psw', '-l', '-F']
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str |
_OPTION_GAP_EXTENSION = '-e'
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str |
_OPTION_GAP_START = '-g'
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str |
_OPTION_SCORES = '-m'
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SRE_Pattern |
_re_unit = ^Unit +([01])- \[ *(-?\d+)- *(-?\d+)\] \[(\w+...
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Function Details |
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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) |
Variable Details |
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__version__
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_CMDLINE_PSW
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_OPTION_GAP_EXTENSION
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_OPTION_GAP_START
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_OPTION_SCORES
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_re_unit
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