typedef struct __bcf_callaux_t {
int capQ, min_baseQ;
int openQ, extQ, tandemQ; // for indels
- int min_support; // for collecting indel candidates
- double min_frac; // for collecting indel candidates
+ int min_support, max_support; // for collecting indel candidates
+ double min_frac, max_frac; // for collecting indel candidates
+ int per_sample_flt; // indel filtering strategy
// for internal uses
int max_bases;
int indel_types[4];
typedef struct {
int a[5]; // alleles: ref, alt, alt2, alt3
+ float qsum[4];
int n, n_alleles, shift, ori_ref, unseen;
int n_supp; // number of supporting non-reference reads
int anno[16], depth, ori_depth;