vg::Constructor Member List

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

add_name_mapping(const string &vcf_name, const string &fasta_name)	vg::NameMapper
allowed_vcf_names	vg::Constructor
allowed_vcf_regions	vg::Constructor
alt_paths	vg::Constructor
alts_as_loci	vg::Constructor
ambiguous_warned_sequences	vg::Constructor	mutableprivate
bases_per_chunk	vg::Constructor
chain_deletions	vg::Constructor
condense_edits(list< vcflib::VariantAllele > &parsed_allele)	vg::Constructor	privatestatic
construct_chunk(string reference_sequence, string reference_path_name, vector< vcflib::Variant > variants, size_t chunk_offset) const	vg::Constructor
construct_graph(string vcf_contig, FastaReference &reference, VcfBuffer &variant_source, const vector< FastaReference * > &insertion, const function< void(Graph &)> &callback)	vg::Constructor
construct_graph(const vector< FastaReference * > &references, const vector< vcflib::VariantCallFile * > &variant_files, const vector< FastaReference * > &insertions, const function< void(Graph &)> &callback)	vg::Constructor
construct_graph(const vector< string > &reference_filenames, const vector< string > &variant_filenames, const vector< string > &insertion_filenames, const function< void(Graph &)> &callback)	vg::Constructor
construct_graph(const vector< FastaReference * > &references, const vector< vcflib::VariantCallFile * > &variant_files, const vector< FastaReference * > &insertions, MutablePathMutableHandleGraph *destination)	vg::Constructor
construct_graph(const vector< string > &reference_filenames, const vector< string > &variant_filenames, const vector< string > &insertion_filenames, MutablePathMutableHandleGraph *destination)	vg::Constructor
create_progress(const string &message, long count)	vg::Progressive
create_progress(long count)	vg::Progressive
destroy_progress(void)	vg::Progressive
do_svs	vg::Constructor
ensure_progress(long count)	vg::Progressive
fasta_to_vcf(const string &fasta_name) const	vg::NameMapper
fasta_to_vcf_renames	vg::NameMapper	protected
flat	vg::Constructor
get_bounds(const vector< list< vcflib::VariantAllele >> &trimmed_variant)	vg::Constructor	privatestatic
get_symbolic_bounds(vcflib::Variant var)	vg::Constructor	privatestatic
greedy_pieces	vg::Constructor
increment_progress()	vg::Progressive
last_progress	vg::Progressive	private
lowercase_warned_alt	vg::Constructor	mutableprivate
lowercase_warned_sequences	vg::Constructor	mutableprivate
max_id	vg::Constructor	protected
max_node_size	vg::Constructor
max_parsed_variant_size	vg::Constructor
multiallelic_sv_warned	vg::Constructor	mutableprivate
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
sanitize_sequence_in_place(string &sequence, const string *sequence_name=nullptr, size_t sequence_start_offset=0, const vcflib::Variant *variant=nullptr) const	vg::Constructor	private
sha1_variant_name	vg::Constructor
show_progress	vg::Progressive
symbolic_allele_warnings	vg::Constructor	protected
trim_indels	vg::Constructor
trim_to_variable(vector< list< vcflib::VariantAllele >> &parsed_alleles)	vg::Constructor	privatestatic
uncanonicalizable_sv_warned	vg::Constructor	mutableprivate
update_progress(long i)	vg::Progressive
vars_per_chunk	vg::Constructor
vcf_to_fasta(const string &vcf_name) const	vg::NameMapper
vcf_to_fasta_renames	vg::NameMapper	protected
warn_on_ambiguous	vg::Constructor
warn_on_lowercase	vg::Constructor
with_progress(bool show_progress, const std::string &task, const std::function< void(const std::function< void(size_t, size_t)> &progress)> &callback)	vg::Progressive	static