vg
tools for working with variation graphs
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This is the complete list of members for vg::NetGraph, including all inherited members.
add_chain_child(const Chain &chain) | vg::NetGraph | protected |
add_unary_child(const Snarl *unary) | vg::NetGraph | protected |
chain_end_rewrites | vg::NetGraph | protected |
chain_ends_by_start | vg::NetGraph | protected |
connectivity | vg::NetGraph | protected |
edge_handle(const handle_t &left, const handle_t &right) const | handlegraph::HandleGraph | |
end | vg::NetGraph | protected |
flip(const handle_t &handle) const | vg::NetGraph | virtual |
follow_edges(const handle_t &handle, bool go_left, const Iteratee &iteratee) const | handlegraph::HandleGraph | |
follow_edges_impl(const handle_t &handle, bool go_left, const function< bool(const handle_t &)> &iteratee) const | vg::NetGraph | virtual |
handlegraph::HandleGraph::follow_edges_impl(const handle_t &handle, bool go_left, const std::function< bool(const handle_t &)> &iteratee) const =0 | handlegraph::HandleGraph | protectedpure virtual |
for_each_edge(const Iteratee &iteratee, bool parallel=false) const | handlegraph::HandleGraph | |
for_each_handle(const Iteratee &iteratee, bool parallel=false) const | handlegraph::HandleGraph | |
for_each_handle_impl(const function< bool(const handle_t &)> &iteratee, bool parallel=false) const | vg::NetGraph | virtual |
handlegraph::HandleGraph::for_each_handle_impl(const std::function< bool(const handle_t &)> &iteratee, bool parallel=false) const =0 | handlegraph::HandleGraph | protectedpure virtual |
forward(const handle_t &handle) const | handlegraph::HandleGraph | |
get_base(const handle_t &handle, size_t index) const | handlegraph::HandleGraph | virtual |
get_degree(const handle_t &handle, bool go_left) const | handlegraph::HandleGraph | virtual |
get_edge_count() const | handlegraph::HandleGraph | virtual |
get_end() const | vg::NetGraph | |
get_handle(const id_t &node_id, bool is_reverse=false) const | vg::NetGraph | virtual |
get_handle_from_inward_backing_handle(const handle_t &backing_handle) const | vg::NetGraph | |
get_id(const handle_t &handle) const | vg::NetGraph | virtual |
get_inward_backing_handle(const handle_t &child_handle) const | vg::NetGraph | |
get_is_reverse(const handle_t &handle) const | vg::NetGraph | virtual |
get_length(const handle_t &handle) const | vg::NetGraph | virtual |
get_node_count() const | vg::NetGraph | virtual |
get_sequence(const handle_t &handle) const | vg::NetGraph | virtual |
get_start() const | vg::NetGraph | |
get_subsequence(const handle_t &handle, size_t index, size_t size) const | handlegraph::HandleGraph | virtual |
get_total_length() const | handlegraph::HandleGraph | virtual |
graph | vg::NetGraph | protected |
has_edge(const handle_t &left, const handle_t &right) const | handlegraph::HandleGraph | virtual |
has_edge(const edge_t &edge) const | handlegraph::HandleGraph | inline |
has_node(id_t node_id) const | vg::NetGraph | virtual |
is_child(const handle_t &handle) const | vg::NetGraph | |
max_node_id() const | vg::NetGraph | virtual |
min_node_id() const | vg::NetGraph | virtual |
NetGraph(const Visit &start, const Visit &end, const ChainContainer &child_chains_mixed, const HandleGraph *graph, bool use_internal_connectivity=false) | vg::NetGraph | inline |
NetGraph(const Visit &start, const Visit &end, const ChainContainer &child_chains, const SnarlContainer &child_unary_snarls, const HandleGraph *graph, bool use_internal_connectivity=false) | vg::NetGraph | inline |
NetGraph(const Visit &start, const Visit &end, const vector< vector< pair< Snarl, bool >>> &child_chains, const vector< Snarl > &child_unary_snarls, const HandleGraph *graph, bool use_internal_connectivity=false) | vg::NetGraph | |
NetGraph(const Visit &start, const Visit &end, const HandleGraph *graph, bool use_internal_connectivity=false) | vg::NetGraph | protected |
start | vg::NetGraph | protected |
traverse_edge_handle(const edge_t &edge, const handle_t &left) const | handlegraph::HandleGraph | |
unary_boundaries | vg::NetGraph | protected |
use_internal_connectivity | vg::NetGraph | protected |
~HandleGraph()=default | handlegraph::HandleGraph | virtual |