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integration/print het sites

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chhylp123
2022-01-17 18:29:48 -05:00
parent 7af0d85258
commit 0ce5a7ba5b
18 changed files with 2884 additions and 385 deletions
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7
Process_Read.h
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@@ -193,6 +193,7 @@ typedef struct
} all_ul_t;
extern all_ul_t UL_INF;
// extern uint32_t *het_cnt;
void init_All_reads(All_reads* r);
void malloc_All_reads(All_reads* r);
@@ -216,7 +217,9 @@ void init_all_ul_t(all_ul_t *x, All_reads *hR);
void destory_all_ul_t(all_ul_t *x);
void append_ul_t(all_ul_t *x, uint64_t *rid, char* id, int64_t id_l, char* str, int64_t str_l, ul_ov_t *o, int64_t on);
void retrieve_ul_t(UC_Read* i_r, char *i_s, all_ul_t *ref, uint64_t ID, uint8_t strand, int64_t s, int64_t l);
void retrieve_u_seq(UC_Read* i_r, char* i_s, ma_utg_t *u, uint8_t strand, int64_t s, int64_t l);
void debug_retrieve_rc_sub(all_ul_t *ref, const All_reads *R_INF, ma_utg_v *u, uint32_t n_step);
void retrieve_u_seq(UC_Read* i_r, char* i_s, ma_utg_t *u, uint8_t strand, int64_t s, int64_t l, void *km);
void debug_retrieve_rc_sub(const ug_opt_t *uopt, all_ul_t *ref, const All_reads *R_INF, ul_idx_t *ul, uint32_t n_step);
uint32_t retrieve_u_cov(const ul_idx_t *ul, uint64_t id, uint8_t strand, uint64_t pos, uint8_t dir, int64_t *pi);
uint64_t retrieve_u_cov_region(const ul_idx_t *ul, uint64_t id, uint8_t strand, uint64_t s, uint64_t e, int64_t *pi);
#endif