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Package Bio :: Package AlignAce :: Module Scanner :: Class AlignAceScanner |
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Scannner for AlignACE output
Methods: feed Feed data into the scanner.
The scanner generates (and calls the consumer) the following types of events:
noevent - blank line
version - AlignACE version number command_line - AlignACE command line string parameters - the begining of the parameters parameter - the line containing a parameter sequences - the begining of the sequences list sequence - line containing the name of the input sequence (and a respective number) motif - the begining of the motif (contains the number) motif_hit - one hit for a motif motif_mask - mask of the motif (space - gap, asterisk - significant position) motif_score - MAP score of the motif - approx. N * log R, where R == (num. of actual occur.) / (num. of occur. expected by random.)Method Summary | |
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S.feed(handle, consumer) |
Method Details |
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feed(self, handle, consumer)S.feed(handle, consumer) Feed in a AlignACE report for scanning. handle is a file-like object that contains the AlignACE report. consumer is a Consumer object that will receive events as the report is scanned. |
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