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Searched refs:bcf_get_alt (Results 1 – 9 of 9) sorted by relevance

/dports/biology/vt/vt-0.57721/
H A Dconstruct_probes.cpp133 if (strchr(bcf_get_alt(v, 0), 'N') || strchr(bcf_get_alt(v, 1), 'N')) in construct_probes()
148 alleles.push_back(std::string(bcf_get_alt(v,i))); in construct_probes()
H A Dcandidate_region_extractor.cpp142 std::string ref(bcf_get_alt(v, 0)); in is_homopolymer()
143 std::string alt(bcf_get_alt(v, i)); in is_homopolymer()
187 std::string ref(bcf_get_alt(v, 0)); in extract_regions_by_exact_alignment()
188 std::string alt(bcf_get_alt(v, i)); in extract_regions_by_exact_alignment()
290 std::string ref(bcf_get_alt(v, 0)); in extract_regions_by_fuzzy_alignment()
291 std::string alt(bcf_get_alt(v, i)); in extract_regions_by_fuzzy_alignment()
H A Dhts_utils.cpp1043 kputs(bcf_get_alt(v, i), var); in bcf_variant2string()
1104 kputs(bcf_get_alt(v, 0), var); in bcf_variant2string_sorted()
1106 kputs(bcf_get_alt(v, 1), var); in bcf_variant2string_sorted()
1117 kputs(bcf_get_alt(v, 0), var); in bcf_variant2string_sorted()
1137 kputs(bcf_get_alt(v, 0), var); in bcf_alleles2string()
1139 kputs(bcf_get_alt(v, 1), var); in bcf_alleles2string()
1162 kputs(bcf_get_alt(v, 0), var); in bcf_alleles2string_sorted()
1164 kputs(bcf_get_alt(v, 1), var); in bcf_alleles2string_sorted()
1177 kputs(bcf_get_alt(v, 0), var); in bcf_alleles2string_sorted()
H A Dnormalize.cpp226 char *s = bcf_get_alt(v, i); in normalize()
232 alleles.push_back(std::string(bcf_get_alt(v, i))); in normalize()
H A Dmultiallelics_consolidator.cpp389 std::string alt(bcf_get_alt(mvar.vs[i], 1)); in update_multiallelic_for_printing()
H A Dfuzzy_partition.cpp265 kputs(bcf_get_alt(v, i), var); in bcf_variant2string_with_motif()
H A Dhts_utils.h584 #define bcf_get_alt(v, i) ((v)->d.allele[i]) macro
H A Dvariant.cpp659 kputs(bcf_get_alt(v, i), &var); in get_variant_string()
H A Dconsolidate.cpp640 alt.append(bcf_get_alt(candidate_indel_vs[i], 1)); in consolidate_multiallelic()