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

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

apply_min_bp_edge_override(const vector< SnarlTraversal > &traversals, const set< int > &tgt_travs, vector< Support > &supports, int ref_trav_idx) constvg::TraversalSupportFindervirtual
average_node_support_switch_thresholdvg::TraversalSupportFinderprotected
average_traversal_support_switch_thresholdvg::TraversalSupportFinderprotected
avg_node_mapq_cachevg::CachedPackedTraversalSupportFindermutableprotected
avg_node_support_cachevg::CachedPackedTraversalSupportFindermutableprotected
CachedPackedTraversalSupportFinder(const Packer &packer, SnarlManager &snarl_manager, size_t cache_size=500000)vg::CachedPackedTraversalSupportFinder
child_support_mapvg::NestedCachedPackedTraversalSupportFinder
edge_support_cachevg::CachedPackedTraversalSupportFindermutableprotected
get_average_traversal_support_switch_threshold() constvg::TraversalSupportFindervirtual
get_avg_node_mapq(id_t node) constvg::CachedPackedTraversalSupportFindervirtual
get_avg_node_support(id_t node) constvg::CachedPackedTraversalSupportFindervirtual
get_child_support(const Snarl &snarl) constvg::NestedCachedPackedTraversalSupportFindervirtual
get_edge_length(const edge_t &edge, const unordered_map< id_t, size_t > &ref_offsets) constvg::TraversalSupportFindervirtual
get_edge_support(id_t from, bool from_reverse, id_t to, bool to_reverse) constvg::CachedPackedTraversalSupportFindervirtual
vg::PackedTraversalSupportFinder::get_edge_support(const edge_t &edge) constvg::PackedTraversalSupportFindervirtual
get_min_node_support(id_t node) constvg::CachedPackedTraversalSupportFindervirtual
get_ref_offsets(const SnarlTraversal &ref_trav) constvg::TraversalSupportFinder
get_traversal_genotype_support(const vector< SnarlTraversal > &traversals, const vector< int > &genotype, const set< int > &other_trav_subset, int ref_trav_idx=-1, int *max_trav_size=nullptr)vg::TraversalSupportFindervirtual
get_traversal_mapqs(const vector< SnarlTraversal > &traversals) constvg::TraversalSupportFindervirtual
get_traversal_set_support(const vector< SnarlTraversal > &traversals, const vector< int > &shared_travs, const vector< Support > &shared_support, const set< int > &tgt_travs, bool exclusive_only, const vector< int > &exclusive_count_travs, const vector< Support > &exclusive_count_support, int ref_trav_idx=-1, int *max_trav_size=nullptr) constvg::TraversalSupportFindervirtual
get_traversal_sizes(const vector< SnarlTraversal > &traversals) constvg::TraversalSupportFindervirtual
get_traversal_support(const SnarlTraversal &traversal) constvg::TraversalSupportFindervirtual
graphvg::TraversalSupportFinderprotected
min_bp_edge_overridevg::TraversalSupportFinderprotected
min_node_support_cachevg::CachedPackedTraversalSupportFindermutableprotected
NestedCachedPackedTraversalSupportFinder(const Packer &packer, SnarlManager &snarl_manager, size_t cache_size=500000)vg::NestedCachedPackedTraversalSupportFinder
PackedTraversalSupportFinder(const Packer &packer, SnarlManager &snarl_manager)vg::PackedTraversalSupportFinder
packervg::PackedTraversalSupportFinderprotected
set_min_bp_edge_override(bool bp_override)vg::TraversalSupportFindervirtual
set_support_switch_threshold(size_t trav_thresh, size_t node_thresh)vg::TraversalSupportFindervirtual
snarl_managervg::TraversalSupportFinderprotected
support_val(const Support &support)vg::TraversalSupportFinderinlinestatic
SupportMap typedefvg::NestedCachedPackedTraversalSupportFinder
TraversalSupportFinder(const HandleGraph &graph, SnarlManager &snarl_manager)vg::TraversalSupportFinder
~CachedPackedTraversalSupportFinder()vg::CachedPackedTraversalSupportFindervirtual
~NestedCachedPackedTraversalSupportFinder()vg::NestedCachedPackedTraversalSupportFindervirtual
~PackedTraversalSupportFinder()vg::PackedTraversalSupportFindervirtual
~TraversalSupportFinder()vg::TraversalSupportFindervirtual