typedef struct __bcf_callaux_t {
int capQ, min_baseQ;
- int openQ, extQ, tandemQ;
+ int openQ, extQ, tandemQ; // for indels
+ int min_support; // for collecting indel candidates
+ double min_frac; // for collecting indel candidates
// for internal uses
int max_bases;
int indel_types[4];
int depth, ori_depth, qsum[4];
int anno[16];
float p[25];
+ int mvd[3]; // mean variant distance, number of variant reads, average read length
} bcf_callret1_t;
typedef struct {
int n, n_alleles, shift, ori_ref, unseen;
int anno[16], depth, ori_depth;
uint8_t *PL;
+ float vdb; // variant distance bias
} bcf_call_t;
#ifdef __cplusplus