8afb1644e9
now written to columns automatically created in the output view, all optimally handled at the C level.
28 lines
771 B
C
28 lines
771 B
C
/*
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* sse_banded_LCS_alignment.h
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*
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* Created on: november 29, 2012
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* Author: mercier
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*/
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#ifndef SSE_BANDED_LCS_ALIGNMENT_H_
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#define SSE_BANDED_LCS_ALIGNMENT_H_
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#include <stdint.h>
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#include <stdbool.h>
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#include "obiblob.h"
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#define ALILEN (0) // TODO enum
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#define MAXLEN (1)
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#define MINLEN (2)
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// TODO doc
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int calculateLCSmin(int l1, int l2, double threshold, bool normalize, int reference, bool lcsmode);
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double generic_sse_banded_lcs_align(char* seq1, char* seq2, double threshold, bool normalize, int reference, bool similarity_mode, int* lcs_length, int* ali_length);
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double obiblob_sse_banded_lcs_align(Obi_blob_p seq1, Obi_blob_p seq2, double threshold, bool normalize, int reference, bool similarity_mode, int* lcs_length, int* ali_length);
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#endif
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