5 #include "bcftools/bcf.h"
7 struct __bcf_callaux_t;
8 typedef struct __bcf_callaux_t bcf_callaux_t;
17 int a[5]; // alleles: ref, alt, alt2, alt3
18 int n, n_alleles, shift, ori_ref, unseen;
27 bcf_callaux_t *bcf_call_init(double theta, int min_baseQ);
28 void bcf_call_destroy(bcf_callaux_t *bca);
29 int bcf_call_glfgen(int _n, const bam_pileup1_t *pl, int ref_base /*4-bit*/, bcf_callaux_t *bca, bcf_callret1_t *r);
30 int bcf_call_combine(int n, const bcf_callret1_t *calls, int ref_base /*4-bit*/, bcf_call_t *call);
31 int bcf_call2bcf(int tid, int pos, bcf_call_t *bc, bcf1_t *b, bcf_callret1_t *bcr);