vg
tools for working with variation graphs
vg::VCFOutputCaller Member List

This is the complete list of members for vg::VCFOutputCaller, including all inherited members.

add_variant(vcflib::Variant &var) constvg::VCFOutputCaller
emit_variant(const PathPositionHandleGraph &graph, SnarlCaller &snarl_caller, const Snarl &snarl, const vector< SnarlTraversal > &called_traversals, const vector< int > &genotype, int ref_trav_idx, const unique_ptr< SnarlCaller::CallInfo > &call_info, const string &ref_path_name, int ref_offset, bool genotype_snarls) constvg::VCFOutputCallerprotected
flatten_common_allele_ends(vcflib::Variant &variant, bool backward, size_t len_override) constvg::VCFOutputCallerprotected
get_ref_interval(const PathPositionHandleGraph &graph, const Snarl &snarl, const string &ref_path_name) constvg::VCFOutputCallerprotected
max_uncalled_allelesvg::VCFOutputCallerprotected
output_variantsvg::VCFOutputCallermutableprotected
output_vcfvg::VCFOutputCallermutableprotected
sample_namevg::VCFOutputCallerprotected
vcf_header(const PathHandleGraph &graph, const vector< string > &contigs, const vector< size_t > &contig_length_overrides) constvg::VCFOutputCallervirtual
VCFOutputCaller(const string &sample_name)vg::VCFOutputCaller
write_variants(ostream &out_stream) constvg::VCFOutputCaller
~VCFOutputCaller()vg::VCFOutputCallervirtual