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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::RepertoireParser< Aligner >, including all inherited members.
| _aligner (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _genes (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _opts (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _read_header (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _recomb (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _seq_type (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _stats (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _status (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| _stream (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | protected |
| get_prefix(const string &filename) const (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | inlineprotected |
| open(const std::string &filepath, const VDJRecombinationGenes &gene_segments, SequenceType seq_type, Recombination recomb, AlignmentColumnOptions opts=AlignmentColumnOptions().setV(AlignmentColumnOptions::USE_PROVIDED).setJ(AlignmentColumnOptions::USE_PROVIDED).setD(AlignmentColumnOptions::OVERWRITE), VDJAlignerParameters params=VDJAlignerParameters()) | ymir::RepertoireParser< Aligner > | inline |
| openAndParse(const std::string &filepath, Cloneset *cloneset, const VDJRecombinationGenes &gene_segments, SequenceType seq_type, Recombination recomb, AlignmentColumnOptions opts=AlignmentColumnOptions().setV(AlignmentColumnOptions::USE_PROVIDED).setJ(AlignmentColumnOptions::USE_PROVIDED).setD(AlignmentColumnOptions::OVERWRITE), VDJAlignerParameters params=VDJAlignerParameters()) (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | inline |
| parse(Cloneset *cloneset, size_t max_clonotype_count=(size_t)-1) | ymir::RepertoireParser< Aligner > | inline |
| parseAlignment(stringstream &symbol_stream, const string &segment_word, const vector< seg_index_t > &segvec, GeneSegments gene, const GeneSegmentAlphabet &gsa, size_t line_num, char segment_sep, char internal_sep, string &temp_str, stringstream &temp_stream) (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | inlineprotected |
| ParserConfig typedef | ymir::RepertoireParser< Aligner > | |
| parseRepertoire(ClonotypeVector &vec, size_t max_clonotype_count) (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | inlineprotected |
| parseSegment(stringstream &symbol_stream, const string &segment_word, vector< seg_index_t > &segvec, const GeneSegmentAlphabet &gsa, size_t line_num, char segment_sep, string &temp_str) (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | inlineprotected |
| RepertoireParser() (defined in ymir::RepertoireParser< Aligner >) | ymir::RepertoireParser< Aligner > | inline |
1.8.11
