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r257: dropped contained unitigs

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Heng Li
2020-06-08 15:43:21 -04:00
parent afa93e4bbb
commit 36bfb02298
4 changed files with 109 additions and 15 deletions
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Overlaps.h
+4 -1
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@@ -83,7 +83,6 @@ char* output_file_name);
typedef struct {
uint32_t s:31, del:1, e;
uint8_t c;
uint8_t weak_contain;
} ma_sub_t;
void ma_hit_sub(int min_dp, ma_hit_t_alloc* sources, long long n_read, uint64_t* readLen,
@@ -519,6 +518,10 @@ void asg_con_sort(asg_t *g);
void asg_con_index(asg_t *g);
asg_t *ma_sg_gen(const ma_hit_t_alloc* sources, long long n_read, const ma_sub_t *coverage_cut, int max_hang, int min_ovlp);
int asg_arc_del_trans(asg_t *g, int fuzz);
int asg_drop_contained_utg(asg_t *g);
#define asg_con_n(g, v) ((g)->contain? (uint32_t)(g)->con_idx[(v)] : 0)
#define asg_con_a(g, v) ((g)->contain? &(g)->contain[(g)->con_idx[(v)]>>32] : 0)
/*******************
* Other rountines *