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chhylp123
2020-07-28 13:07:35 -04:00
parent 94008c02ac
commit ace34ae2b8
12 changed files with 1902 additions and 89 deletions
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Overlaps.h
+4 -2
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@@ -22,7 +22,9 @@
#define ALTER_LABLE 1
#define HAP_LABLE 2
#define TRIO_THRES 0.9
#define DOUBLE_CHECK_THRES 0.2
#define DOUBLE_CHECK_THRES 0.1
#define FINAL_DOUBLE_CHECK_THRES 0.2
#define CHIMERIC_TRIM_THRES 4
// #define PRIMARY_LABLE 1
// #define ALTER_LABLE 2
// #define HAP_LABLE 4
@@ -1048,7 +1050,7 @@ uint32_t is_primary_check, kvec_asg_arc_t_warp* new_rtg_edges);
void deduplicate(ma_ug_t *src, asg_t *read_g, ma_hit_t_alloc* reverse_sources, long long minLongUntig,
long long maxShortUntig, float l_untig_rate, float max_node_threshold, R_to_U* ruIndex, uint32_t resolve_tangle);
void all_to_all_deduplicate(ma_ug_t* ug, asg_t* read_g, ma_sub_t* coverage_cut,
ma_hit_t_alloc* sources, uint8_t postive_flag, float drop_rate, ma_hit_t_alloc* reverse_sources, R_to_U* ruIndex);
ma_hit_t_alloc* sources, uint8_t postive_flag, float drop_rate, ma_hit_t_alloc* reverse_sources, R_to_U* ruIndex, float double_check_rate);
void drop_semi_circle(ma_ug_t *ug, asg_t* nsg, asg_t* read_g, ma_hit_t_alloc* reverse_sources, R_to_U* ruIndex);
void rescue_wrong_overlaps_to_unitigs(ma_ug_t *i_ug, asg_t *r_g, ma_hit_t_alloc* sources, ma_hit_t_alloc* reverse_sources,
ma_sub_t *coverage_cut, R_to_U* ruIndex, int max_hang, int min_ovlp, long long bubble_dist, kvec_asg_arc_t_warp* keep_edges);