This is the complete list of members for vg::HaplotypeIndexer, including all inherited members.
batch_file_prefix | vg::HaplotypeIndexer | |
build_gbwt(const PathHandleGraph *graph, map< string, Path > &alt_paths, bool index_paths, const string &vcf_filename, const vector< string > &aln_filenames, const string &aln_format) | vg::HaplotypeIndexer | |
create_progress(const string &message, long count) | vg::Progressive | |
create_progress(long count) | vg::Progressive | |
destroy_progress(void) | vg::Progressive | |
discard_overlaps | vg::HaplotypeIndexer | |
excluded_samples | vg::HaplotypeIndexer | |
force_phasing | vg::HaplotypeIndexer | |
found_missing_variants | vg::HaplotypeIndexer | |
gbwt_buffer_size | vg::HaplotypeIndexer | |
generate_threads(const PathHandleGraph *graph, map< string, Path > &alt_paths, bool index_paths, const string &vcf_filename, const vector< string > &aln_filenames, const string &aln_format, const function< void(size_t)> &bit_width_ready, const function< void(const gbwt::vector_type &, const gbwt::size_type(&)[4])> &each_thread) | vg::HaplotypeIndexer | |
HaplotypeIndexer() | vg::HaplotypeIndexer | |
id_interval | vg::HaplotypeIndexer | |
increment_progress() | vg::Progressive | |
index_paths | vg::HaplotypeIndexer | |
last_progress | vg::Progressive | private |
max_missing_variant_warnings | vg::HaplotypeIndexer | |
parse_vcf(const PathHandleGraph *graph, map< string, Path > &alt_paths, const vector< path_handle_t > &contigs, vcflib::VariantCallFile &variant_file, std::vector< std::string > &sample_names, const function< void(size_t, const gbwt::VariantPaths &, gbwt::PhasingInformation &)> &handle_contig_haplotype_batch) | vg::HaplotypeIndexer | |
path_to_vcf | vg::HaplotypeIndexer | |
phase_homozygous | vg::HaplotypeIndexer | |
preload_progress(const string &message) | vg::Progressive | |
progress | vg::Progressive | private |
progress_count | vg::Progressive | private |
progress_message | vg::Progressive | private |
progress_seen | vg::Progressive | private |
regions | vg::HaplotypeIndexer | |
rename_variants | vg::HaplotypeIndexer | |
sample_range | vg::HaplotypeIndexer | |
samples_in_batch | vg::HaplotypeIndexer | |
show_progress | vg::Progressive | |
update_progress(long i) | vg::Progressive | |
warn_on_missing_variants | vg::HaplotypeIndexer | |