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new ec model

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chhylp123
2024-06-30 19:53:51 -04:00
parent 70fd9a0b1f
commit d5f8a8a6c0
12 changed files with 2746 additions and 52 deletions
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Hash_Table.h
+8
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@@ -8,6 +8,7 @@
#define WINDOW 375
#define WINDOW_BOUNDARY 375
#define WINDOW_HC 775
///for one side, the first or last WINDOW_UNCORRECT_SINGLE_SIDE_BOUNDARY bases should not be corrected
#define WINDOW_UNCORRECT_SINGLE_SIDE_BOUNDARY 25
#define THRESHOLD 15
@@ -236,4 +237,11 @@ uint64_t lchain_qdp_mcopy(Candidates_list *cl, int64_t a_idx, int64_t a_n, int64
int64_t gen_cigar, int64_t enable_mcopy, double mcopy_rate, int64_t mcopy_khit_cutoff,
int64_t khit_n);
uint64_t lchain_qdp_mcopy_fast(Candidates_list *cl, int64_t a_idx, int64_t a_n, int64_t des_idx,
Chain_Data* dp, overlap_region_alloc* res, int64_t max_skip, int64_t max_iter,
int64_t max_dis, double chn_pen_gap, double chn_pen_skip, double bw_rate,
uint32_t xid, int64_t xl, int64_t yl, int64_t quick_check, uint32_t apend_be,
int64_t gen_cigar, int64_t enable_mcopy, double mcopy_rate, int64_t mcopy_khit_cutoff,
int64_t khit_n);
#endif