vg
tools for working with variation graphs
- e -
easy_sort() :
vg::StreamSorter< Message >
edge_allele_labels() :
vg::Genotyper
edge_count() :
vg::VG
edge_coverage() :
vg::Packer
edge_coverage_bin_offset() :
vg::Packer
edge_coverage_bin_size() :
vg::Packer
edge_delta_to_id() :
bdsg::ODGI
edge_handle() :
bdsg::ODGI
,
handlegraph::HandleGraph
edge_index() :
handlegraph::VectorizableHandleGraph
,
vg::Packer
,
xg::XG
edge_orientation() :
xg::XG
edge_relative_offset() :
xg::XG
edge_to_delta() :
bdsg::ODGI
edge_vector_size() :
vg::Packer
edges_end() :
vg::VG
edges_from() :
vg::VG
edges_of() :
vg::VG
edges_of_node() :
vg::VG
edges_of_nodes() :
vg::VG
edges_start() :
vg::VG
edges_to() :
vg::VG
edit() :
vg::path_mapping_t
,
vg::VG
edit_fast() :
vg::VG
edit_size() :
vg::path_mapping_t
edit_t() :
vg::edit_t
edit_value() :
vg::Packer
EditedTranscriptPath() :
vg::EditedTranscriptPath
edits_at_position() :
vg::Packer
eject_deleted_paths() :
bdsg::PackedGraph
elementary_cycles() :
vg::VG
embed_transcript_paths() :
vg::Transcriptome
emit() :
Vectorizer
,
vg::io::TSVAlignmentEmitter
emit_gaf_traversals() :
vg::GAFOutputCaller
emit_gaf_variant() :
vg::GAFOutputCaller
emit_group() :
vg::io::MessageEmitter
,
vg::io::ProtobufEmitter< T >
emit_mapped_pair() :
vg::io::AlignmentEmitter
emit_mapped_pairs() :
vg::HTSAlignmentEmitter
,
vg::io::AlignmentEmitter
,
vg::io::GafAlignmentEmitter
,
vg::io::NullAlignmentEmitter
,
vg::io::TSVAlignmentEmitter
,
vg::io::VGAlignmentEmitter
emit_mapped_single() :
vg::io::AlignmentEmitter
emit_mapped_singles() :
vg::HTSAlignmentEmitter
,
vg::io::AlignmentEmitter
,
vg::io::GafAlignmentEmitter
,
vg::io::NullAlignmentEmitter
,
vg::io::TSVAlignmentEmitter
,
vg::io::VGAlignmentEmitter
emit_pair() :
vg::io::AlignmentEmitter
emit_pairs() :
vg::HTSAlignmentEmitter
,
vg::io::AlignmentEmitter
,
vg::io::GafAlignmentEmitter
,
vg::io::NullAlignmentEmitter
,
vg::io::TSVAlignmentEmitter
,
vg::io::VGAlignmentEmitter
,
vg::MultipathAlignmentEmitter
emit_single() :
vg::io::AlignmentEmitter
emit_singles() :
vg::HTSAlignmentEmitter
,
vg::io::AlignmentEmitter
,
vg::io::GafAlignmentEmitter
,
vg::io::NullAlignmentEmitter
,
vg::io::TSVAlignmentEmitter
,
vg::io::VGAlignmentEmitter
,
vg::MultipathAlignmentEmitter
emit_variant() :
vg::MCMCCaller
,
vg::VCFOutputCaller
empty() :
haplo::int_itvl_t
,
vg::BitString
,
vg::GaplessExtension
,
vg::MultipathAlignmentGraph
,
vg::Option< vector< Item >, Parser >
,
vg::Paths
,
vg::VG
encode() :
vg::MIPayload
encode_and_assign_path_name() :
bdsg::PackedGraph
encode_edge() :
xg::XG
encode_nucleotide() :
bdsg::PackedGraph
encode_path_name() :
bdsg::PackedGraph
encode_traversal() :
bdsg::PackedGraph
end() :
handlegraph::PathForEachSocket
,
vg::Option< vector< Item >, Parser >
,
vg::PathIndex
,
vg::PhasedGenome
,
vg::ShuffledPairs
end_degree() :
vg::VG
EndFile() :
vg::io::BlockedGzipOutputStream
ensure() :
vg::IndexManager
ensure_distance() :
vg::IndexManager
ensure_edit_tmpfiles_open() :
vg::Packer
ensure_gbwt() :
vg::IndexManager
ensure_gbwtgraph() :
vg::IndexManager
ensure_graph() :
vg::IndexManager
ensure_header() :
vg::HTSAlignmentEmitter
ensure_minimizer() :
vg::IndexManager
ensure_snarls() :
vg::IndexManager
entry_to_string() :
vg::Index
erase() :
vg::SnarlState
erase_in_out_edges() :
vg::FlowSort
escape_delim() :
vg::Packer
escape_delims() :
vg::Packer
establish_strand_consistency() :
vg::MultipathMapper
estimate_batch_size() :
vg::Packer
estimate_bin_count() :
vg::Packer
estimate_data_width() :
vg::Packer
estimate_distribution() :
vg::FragmentLengthDistribution
estimate_edge_score() :
vg::MEMClusterer
estimate_gc_content() :
vg::BaseMapper
estimate_max_possible_mapping_quality() :
vg::GSSWAligner
,
vg::Mapper
estimate_missed_rescue_multiplicity() :
vg::MultipathMapper
estimate_next_best_score() :
vg::GSSWAligner
exact() :
vg::GaplessExtension
exclude_dist_tree_merges() :
vg::OrientedDistanceClusterer
exclude_merges() :
vg::OrientedDistanceMeasurer
,
vg::PathOrientedDistanceMeasurer
,
vg::SnarlOrientedDistanceMeasurer
execute() :
vg::AppendHaplotypeCommand
,
vg::DeleteHaplotypeCommand
,
vg::GenomeState
,
vg::GenomeStateCommand
,
vg::InsertHaplotypeCommand
,
vg::ReplaceLocalHaplotypeCommand
,
vg::ReplaceSnarlHaplotypeCommand
,
vg::SwapHaplotypesCommand
ExhaustiveTraversalFinder() :
vg::ExhaustiveTraversalFinder
expand() :
vg::Funnel
expand_context() :
vg::Index
,
vg::VG
expand_context_by_length() :
vg::VG
expand_context_by_steps() :
vg::VG
expand_path() :
vg::VG
expanded_subgraph() :
vg::RegionExpander
explicit_exhaustive_traversals() :
vg::Deconstructor
extend() :
haplo::haplo_DP_column
,
haplo::haplo_DP_rectangle
,
vg::DozeuInterface
,
vg::GaplessExtender
,
vg::IncrementalSubgraph
,
vg::Paths
,
vg::QualAdjXdropAligner
,
vg::VG
,
vg::XdropAligner
extend_dist_tree_by_buckets() :
vg::OrientedDistanceClusterer
extend_dist_tree_by_permutations() :
vg::OrientedDistanceClusterer
extend_path() :
vg::PhaseUnfolder
extend_state() :
vg::PhaseUnfolder
extension_to_alignment() :
vg::MinimizerMapper
external_handle() :
xg::XGPath
extract_cluster_graph() :
vg::MultipathMapper
extract_component() :
vg::PathChunker
extract_encoded_path_name() :
bdsg::PackedGraph
extract_first() :
vg::io::VPKG
extract_id_range() :
vg::PathChunker
extract_linearized_path_graph() :
vg::Surjector
extract_maximal_graph() :
vg::MultipathMapper
extract_overlapping_paths() :
vg::Surjector
extract_path_component() :
vg::PathChunker
extract_rescue_graph() :
vg::MultipathMapper
extract_restrained_graph() :
vg::MultipathMapper
extract_subgraph() :
vg::PathChunker
ExtraNodeGraph() :
vg::ExtraNodeGraph
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