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chhylp123
2025-03-14 01:40:21 -04:00
parent a96191560e
commit b3b18ab1d0
4 changed files with 246 additions and 29 deletions
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Correct.h
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@@ -1391,8 +1391,8 @@ int64_t get_rid_backward_cigar_err(rtrace_iter *it, ul_ov_t *aln, kv_rtrace_t *t
const ul_idx_t *uref, char* qstr, UC_Read *tu, overlap_region_alloc *ol, overlap_region *o,
bit_extz_t *exz, double e_rate, int64_t qs);
void gen_hc_r_alin(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf, uint8_t chem_drop);
void gen_hc_r_alin_nec(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf, uint8_t chem_drop);
void gen_hc_r_alin(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf, uint8_t chem_drop, double align_gap_rate, int64_t align_gap_max);
void gen_hc_r_alin_nec(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf, uint8_t chem_drop, double align_gap_rate, int64_t align_gap_max);
uint64_t gen_hc_r_alin_re(overlap_region* z, Candidates_list *cl, char* qstr, uint64_t ql, char* tstr, uint64_t tl, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf);
void rphase_hc(overlap_region_alloc* ol, All_reads *rref, haplotype_evdience_alloc* hp, UC_Read* qu, UC_Read* tu, kv_ul_ov_t *c_idx, asg64_v* idx, asg64_v* buf, int64_t bd, int64_t wl, int64_t ql, uint8_t occ_thres/**, uint8_t is_dbg**/, uint64_t rid, uint64_t hpc_len, uint64_t std_bs, Chain_Data *dp, asg8_v *q8, asg8_v *t8, uint8_t lindel);
void set_exact_exz(bit_extz_t *exz, int64_t qs, int64_t qe, int64_t ts, int64_t te);