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clean purge_dups

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chhylp123
2021-04-03 16:26:58 -04:00
parent 46e899bbae
commit ebfc04d253
6 changed files with 478 additions and 120 deletions
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Purge_Dups.h
+12
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@@ -13,6 +13,17 @@
#define REAL_ALTER_THRES 0.1
#define CHAIN_FILTER_RATE 0.7
#define SELF_EXIST 0
#define REVE_EXIST 1
#define DELETE 2
#define MIXED 3
#define FLIP 4
#define X2Y 0
#define Y2X 1
#define XCY 2
#define YCX 3
typedef struct {
uint8_t rev;
uint8_t type;
@@ -53,5 +64,6 @@ ma_sub_t *coverage_cut, int max_hang, int min_ovlp, uint32_t is_collect_trans);
void destory_hap_cov_t(hap_cov_t **x);
void chain_trans_ovlp(hap_cov_t *cov, ma_ug_t *ug, asg_t *read_sg, buf_t* xReads, uint32_t targetBaseLen, uint32_t* xEnd);
int get_specific_hap_overlap(kvec_hap_overlaps* x, uint32_t qn, uint32_t tn);
void set_reverse_hap_overlap(hap_overlaps* dest, hap_overlaps* source, uint32_t* types);
#endif