This is the complete list of members for vg::MinimumDistanceIndex, including all inherited members.
calculateMaxIndex(const HandleGraph *graph, int64_t cap) | vg::MinimumDistanceIndex | protected |
calculateMinIndex(const HandleGraph *graph, const SnarlManager *snarl_manager, const Chain *chain, size_t parent_id, bool rev_in_parent, bool trivial_chain, size_t depth) | vg::MinimumDistanceIndex | protected |
chain_assignments | vg::MinimumDistanceIndex | protected |
chain_indexes | vg::MinimumDistanceIndex | protected |
chain_ranks | vg::MinimumDistanceIndex | protected |
ChainIndex class | vg::MinimumDistanceIndex | friend |
distToCommonAncestor(pair< size_t, bool > common_ancestor, pos_t &pos, bool rev) const | vg::MinimumDistanceIndex | protected |
getChainAssignment(id_t i) const | vg::MinimumDistanceIndex | inlineprotected |
getChainRank(id_t i) const | vg::MinimumDistanceIndex | inlineprotected |
getPrimaryAssignment(id_t i) const | vg::MinimumDistanceIndex | inlineprotected |
getPrimaryRank(id_t i) const | vg::MinimumDistanceIndex | inlineprotected |
getSecondaryAssignment(id_t i) const | vg::MinimumDistanceIndex | inlineprotected |
getSecondaryRank(id_t i) const | vg::MinimumDistanceIndex | inlineprotected |
has_chain | vg::MinimumDistanceIndex | protected |
has_chain_bv | vg::MinimumDistanceIndex | protected |
has_secondary_snarl | vg::MinimumDistanceIndex | protected |
has_secondary_snarl_bv | vg::MinimumDistanceIndex | protected |
include_maximum | vg::MinimumDistanceIndex | protected |
load(istream &in) | vg::MinimumDistanceIndex | |
max_distances | vg::MinimumDistanceIndex | protected |
max_node_id | vg::MinimumDistanceIndex | protected |
maxDistance(pos_t pos1, pos_t pos2) const | vg::MinimumDistanceIndex | |
min_distances | vg::MinimumDistanceIndex | protected |
min_node_id | vg::MinimumDistanceIndex | protected |
minDistance(pos_t pos1, pos_t pos2) const | vg::MinimumDistanceIndex | |
MinimumDistanceIndex(const HandleGraph *graph, const SnarlManager *snarl_manager, int64_t cap=0) | vg::MinimumDistanceIndex | |
MinimumDistanceIndex(istream &in) | vg::MinimumDistanceIndex | |
MinimumDistanceIndex() | vg::MinimumDistanceIndex | |
minPos(vector< int64_t > vals) | vg::MinimumDistanceIndex | static |
minPos(int64_t x, int64_t y) | vg::MinimumDistanceIndex | inlinestatic |
primary_snarl_assignments | vg::MinimumDistanceIndex | protected |
primary_snarl_ranks | vg::MinimumDistanceIndex | protected |
printSelf() | vg::MinimumDistanceIndex | |
printSnarlStats() | vg::MinimumDistanceIndex | |
secondary_snarl_assignments | vg::MinimumDistanceIndex | protected |
secondary_snarl_ranks | vg::MinimumDistanceIndex | protected |
serialize(ostream &out) const | vg::MinimumDistanceIndex | |
snarl_indexes | vg::MinimumDistanceIndex | protected |
SnarlIndex class | vg::MinimumDistanceIndex | friend |
SnarlSeedClusterer class | vg::MinimumDistanceIndex | friend |
TestMinDistanceIndex class | vg::MinimumDistanceIndex | friend |
tree_depth | vg::MinimumDistanceIndex | protected |