OpenMS
IDBoostGraph Member List

This is the complete list of members for IDBoostGraph, including all inherited members.

addPeptideAndAssociatedProteinsWithRunInfo_(PeptideIdentification &spectrum, std::unordered_map< unsigned, unsigned > &indexToPrefractionationGroup, std::unordered_map< IDPointer, vertex_t, boost::hash< IDPointer >> &vertex_map, std::unordered_map< std::string, ProteinHit * > &accession_map, Size use_top_psms)IDBoostGraphprivate
addPeptideIDWithAssociatedProteins_(PeptideIdentification &spectrum, std::unordered_map< IDPointer, vertex_t, boost::hash< IDPointer >> &vertex_map, const std::unordered_map< std::string, ProteinHit * > &accession_map, Size use_top_psms, bool best_psms_annotated)IDBoostGraphprivate
addVertexWithLookup_(const IDPointer &ptr, std::unordered_map< IDPointer, vertex_t, boost::hash< IDPointer >> &vertex_map)IDBoostGraphprivate
annotateIndistProteins(bool addSingletons=true)IDBoostGraph
annotateIndistProteins_(const Graph &fg, bool addSingletons)IDBoostGraphprivate
applyFunctorOnCCs(const std::function< unsigned long(Graph &, unsigned int)> &functor)IDBoostGraph
applyFunctorOnCCsST(const std::function< void(Graph &)> &functor)IDBoostGraph
BOOST_STRONG_TYPEDEF(boost::blank, PeptideCluster)IDBoostGraph
BOOST_STRONG_TYPEDEF(String, Peptide)IDBoostGraph
BOOST_STRONG_TYPEDEF(Size, RunIndex)IDBoostGraph
BOOST_STRONG_TYPEDEF(int, Charge)IDBoostGraph
buildGraph_(ProteinIdentification &proteins, std::vector< PeptideIdentification > &idedSpectra, Size use_top_psms, bool best_psms_annotated=false)IDBoostGraphprivate
buildGraph_(ProteinIdentification &proteins, ConsensusMap &cmap, Size use_top_psms, bool use_unassigned_ids, bool best_psms_annotated=false)IDBoostGraphprivate
buildGraphWithRunInfo_(ProteinIdentification &proteins, ConsensusMap &cmap, Size use_top_psms, bool use_unassigned_ids, const ExperimentalDesign &ed)IDBoostGraphprivate
buildGraphWithRunInfo_(ProteinIdentification &proteins, std::vector< PeptideIdentification > &idedSpectra, Size use_top_psms, const ExperimentalDesign &ed)IDBoostGraphprivate
calculateAndAnnotateIndistProteins(bool addSingletons=true)IDBoostGraph
calculateAndAnnotateIndistProteins_(const Graph &fg, bool addSingletons)IDBoostGraphprivate
ccs_IDBoostGraphprivate
clusterIndistProteinsAndPeptides()IDBoostGraph
clusterIndistProteinsAndPeptidesAndExtendGraph()IDBoostGraph
computeConnectedComponents()IDBoostGraph
edge_t typedefIDBoostGraph
gIDBoostGraphprivate
getComponent(Size cc)IDBoostGraph
getDownstreamNodes(const vertex_t &start, const Graph &graph, std::vector< NodeType > &result)IDBoostGraphinlineprivate
getDownstreamNodesNonRecursive(std::queue< vertex_t > &q, const Graph &graph, int lvl, bool stop_at_first, std::vector< vertex_t > &result)IDBoostGraph
getNrConnectedComponents()IDBoostGraph
getProteinGroupScoresAndHitchhikingTgtFraction(ScoreToTgtDecLabelPairs &scores_and_tgt_fraction)IDBoostGraph
getProteinGroupScoresAndTgtFraction(ScoreToTgtDecLabelPairs &scores_and_tgt_fraction)IDBoostGraph
getProteinIDs()IDBoostGraph
getProteinScores_(ScoreToTgtDecLabelPairs &scores_and_tgt)IDBoostGraph
getUpstreamNodes(const vertex_t &start, const Graph graph, std::vector< NodeType > &result)IDBoostGraphinlineprivate
getUpstreamNodesNonRecursive(std::queue< vertex_t > &q, const Graph &graph, int lvl, bool stop_at_first, std::vector< vertex_t > &result)IDBoostGraph
Graph typedefIDBoostGraph
GraphConst typedefIDBoostGraph
Graphs typedefIDBoostGraph
IDBoostGraph(ProteinIdentification &proteins, std::vector< PeptideIdentification > &idedSpectra, Size use_top_psms, bool use_run_info, bool best_psms_annotated, const std::optional< const ExperimentalDesign > &ed=std::optional< const ExperimentalDesign >())IDBoostGraph
IDBoostGraph(ProteinIdentification &proteins, ConsensusMap &cmap, Size use_top_psms, bool use_run_info, bool use_unassigned_ids, bool best_psms_annotated, const std::optional< const ExperimentalDesign > &ed=std::optional< const ExperimentalDesign >())IDBoostGraph
IDPointer typedefIDBoostGraph
IDPointerConst typedefIDBoostGraph
nrPrefractionationGroups_IDBoostGraphprivate
pepHitVtx_to_run_IDBoostGraphprivate
PeptideNodeSet typedefIDBoostGraph
printGraph(std::ostream &out, const Graph &fg)IDBoostGraphstatic
ProteinNodeSet typedefIDBoostGraph
protIDs_IDBoostGraphprivate
resolveGraphPeptideCentric(bool removeAssociationsInData=true)IDBoostGraph
resolveGraphPeptideCentric_(Graph &fg, bool removeAssociationsInData)IDBoostGraphprivate
vertex_t typedefIDBoostGraph