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Ymir
.9
Fast\C++toolforcomputationofassemblingprobabilities,statisticalinferenceofassemblingstatisticalmodelandgenerationofartificialsequencesofT-cellreceptorsdata.
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Ymir
.9
Fast\C++toolforcomputationofassemblingprobabilities,statisticalinferenceofassemblingstatisticalmodelandgenerationofartificialsequencesofT-cellreceptorsdata.
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This is the complete list of members for ymir::VDJModelParser, including all inherited members.
| _behaviour (defined in ymir::ModelParser) | ymir::ModelParser | protected |
| _config (defined in ymir::ModelParser) | ymir::ModelParser | protected |
| _genes (defined in ymir::ModelParser) | ymir::ModelParser | protected |
| _min_D_len (defined in ymir::ModelParser) | ymir::ModelParser | protected |
| _model_path (defined in ymir::ModelParser) | ymir::ModelParser | protected |
| _param_vec (defined in ymir::ModelParser) | ymir::ModelParser | protected |
| addDels(AbstractTDContainer *container, const GeneSegmentAlphabet &gsa, vector< prob_t > &event_probs, vector< event_ind_t > &event_lengths, vector< event_ind_t > &event_classes, vector< seq_len_t > &event_col_num, vector< prob_t > &laplace, seg_index_t prev_class_size) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| addDels2D(AbstractTDContainer *container, const GeneSegmentAlphabet &gsa, vector< prob_t > &event_probs, vector< event_ind_t > &event_lengths, vector< event_ind_t > &event_classes, vector< seq_len_t > &event_col_num, vector< prob_t > &laplace, seg_index_t prev_class_size) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| addGenes(AbstractTDContainer *container, const GeneSegmentAlphabet &gsa, vector< prob_t > &event_probs, vector< event_ind_t > &event_lengths, vector< event_ind_t > &event_classes, vector< seq_len_t > &event_col_num, vector< prob_t > &laplace) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| addGenes(AbstractTDContainer *container, const GeneSegmentAlphabet &gsa_row, const GeneSegmentAlphabet &gsa_column, vector< prob_t > &event_probs, vector< event_ind_t > &event_lengths, vector< event_ind_t > &event_classes, vector< seq_len_t > &event_col_num, vector< prob_t > &laplace, seg_index_t prev_class_size) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| addIns(AbstractTDContainer *container, vector< prob_t > &event_probs, vector< event_ind_t > &event_lengths, vector< event_ind_t > &event_classes, vector< seq_len_t > &event_col_num, vector< prob_t > &laplace, seg_index_t prev_class_size, seq_len_t max_ins_len=0) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| arrangeNames(const vector< string > &names, const GeneSegmentAlphabet &gsa) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| createContainers(vector< AbstractTDContainer * > &containers) (defined in ymir::VDJModelParser) | ymir::VDJModelParser | inlineprotectedvirtual |
| createEventProbabilitiesFromScratch() (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| findGenes(const vector< string > &names, const GeneSegmentAlphabet &gsa, string &err_message) const (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| makeEventProbabilitiesVector() (defined in ymir::ModelParser) | ymir::ModelParser | inline |
| makeModelParameterVector(vector< AbstractTDContainer * > &containers, vector< prob_t > &event_probs, vector< event_ind_t > &event_lengths, vector< event_ind_t > &event_classes, vector< seq_len_t > &event_col_num, vector< prob_t > &laplace, vector< seq_len_t > &min_D_len_vec) (defined in ymir::VDJModelParser) | ymir::VDJModelParser | inlineprotectedvirtual |
| makeModelParameterVector(vector< AbstractTDContainer * > &containers) (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| ModelParser(const std::string &model_path, Json::Value config, ModelBehaviour behav) (defined in ymir::ModelParser) | ymir::ModelParser | inline |
| parse() (defined in ymir::ModelParser) | ymir::ModelParser | inline |
| parseDataContainer(const string &element, AbstractTDContainer *container, vector< AbstractTDContainer * > &containers) (defined in ymir::VDJModelParser) | ymir::VDJModelParser | inlineprotectedvirtual |
| parseEventProbabilitiesFromFiles() (defined in ymir::ModelParser) | ymir::ModelParser | inlineprotected |
| parseGeneSegments() (defined in ymir::VDJModelParser) | ymir::VDJModelParser | inlinevirtual |
| swap_genes(unique_ptr< VDJRecombinationGenes > &ptr) (defined in ymir::ModelParser) | ymir::ModelParser | inline |
| swap_parameters(unique_ptr< ModelParameterVector > &ptr) (defined in ymir::ModelParser) | ymir::ModelParser | inline |
| VDJModelParser(const std::string &model_path, Json::Value config, ModelBehaviour behav) (defined in ymir::VDJModelParser) | ymir::VDJModelParser | inline |
| ~ModelParser() (defined in ymir::ModelParser) | ymir::ModelParser | inlinevirtual |
1.8.11
