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r342-misjoin

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chhylp123
2021-06-19 14:09:09 -04:00
parent e3b721c29a
commit 5a400af39d
9 changed files with 845 additions and 22 deletions
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tovlp.h
+9
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@@ -3,6 +3,13 @@
#include <stdint.h>
#include "Overlaps.h"
typedef struct {///[cBeg, cEnd)
uint32_t ui, len, cBeg, cEnd;
uint32_t *a, an;
ma_ug_t *ug;
utg_trans_t *o;
} utg_trans_hit_idx;
utg_trans_t *init_utg_trans_t(ma_ug_t *ug, ma_hit_t_alloc* reverse_sources, ma_sub_t *coverage_cut, R_to_U* ruIndex, asg_t *read_g, int max_hang, int min_ovlp);
void destroy_utg_trans_t(utg_trans_t **o);
void asg_bub_collect_ovlp(ma_ug_t *ug, uint32_t v0, buf_t *b, utg_trans_t *o);
@@ -14,4 +21,6 @@ int asg_arc_decompress_mul(asg_t *g, ma_ug_t *ug, asg_t *read_sg, uint32_t posit
ma_hit_t_alloc* reverse_sources, R_to_U* ruIndex, utg_trans_t *o);
kv_u_trans_t *pt_pdist(ma_ug_t *ug, asg_t *read_g, ma_sub_t *coverage_cut, ma_hit_t_alloc* sources,
kvec_asg_arc_t_warp* edge, int max_hang, int min_ovlp, uint32_t min_chain_cnt);
void reset_utg_trans_hit_idx(utg_trans_hit_idx *t, uint32_t* i_x_a, uint32_t i_x_n, ma_ug_t *i_ug,
utg_trans_t *i_o, uint32_t i_cBeg, uint32_t i_cEnd);
#endif