r445: pair coordinate adjustment working

Next: mapq adjustment, which will be tricky...
2026-10-05 10:38:12 +08:00 · 2017-09-27 15:38:18 -04:00
parent a349d85280
commit 7e0d70bfd3
5 changed files with 76 additions and 14 deletions
@@ -80,6 +80,7 @@ void mm_set_mapq(int n_regs, mm_reg1_t *regs, int min_chain_sc, int match_sc, in

 mm_seg_t *mm_seg_gen(void *km, int n_segs, const int *qlens, int n_regs0, const mm_reg1_t *regs0, int *n_regs, mm_reg1_t **regs, const mm128_t *a);
 void mm_seg_free(void *km, int n_segs, mm_seg_t *segs);
+void mm_pair(void *km, int max_gap_ref, int dp_bonus, const int *qlens, int *n_regs, mm_reg1_t **regs);

 #ifdef __cplusplus
 }