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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::Clonotype, including all inherited members.
| _alignments | ymir::VDJAlignment | protected |
| _good (defined in ymir::Clonotype) | ymir::Clonotype | protected |
| _n_D_alignments | ymir::VDJAlignment | protected |
| _recomb (defined in ymir::Clonotype) | ymir::Clonotype | protected |
| _segments (defined in ymir::VDJAlignment) | ymir::VDJAlignment | protected |
| _seq_type (defined in ymir::Clonotype) | ymir::Clonotype | protected |
| _sequence (defined in ymir::Clonotype) | ymir::Clonotype | protected |
| aa_sequence() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| Clonotype(const sequence_t &sequence, SequenceType seq_type, Recombination recomb, const segments_storage_t &segments, const NoGapAlignmentVector &alignments, const n_D_alignments_storage_t &n_D_alignments) (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| Clonotype(const sequence_t &sequence, SequenceType seq_type, Recombination recomb, VDJAlignment alignment) (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| Clonotype() (defined in ymir::Clonotype) | ymir::Clonotype | inlineprotected |
| getDiv(size_t index) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getDivGeneEnd(seg_index_t dgene, seg_index_t align_i) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getDivGeneStart(seg_index_t dgene, seg_index_t align_i) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getDivLen(seg_index_t dgene, seg_index_t align_i) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getDivSeqEnd(seg_index_t dgene, seg_index_t align_i) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getDivSeqStart(seg_index_t dgene, seg_index_t align_i) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getJoi(size_t index) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getJoiGeneEnd(seg_index_t jgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getJoiGeneStart(seg_index_t jgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getJoiLen(seg_index_t jgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getJoiSeqEnd(seg_index_t jgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getJoiSeqStart(seg_index_t jgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getVar(size_t index) const | ymir::VDJAlignment | inline |
| getVarGeneEnd(seg_index_t vgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getVarGeneStart(seg_index_t vgene) const | ymir::VDJAlignment | inline |
| getVarLen(seg_index_t vgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getVarSeqEnd(seg_index_t vgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| getVarSeqStart(seg_index_t vgene) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| is_good() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| isCoding() const | ymir::Clonotype | inline |
| isDivMismatch(seg_index_t dgene, seg_index_t align_i, seq_len_t pos) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| isJoiMismatch(seg_index_t jgene, seq_len_t pos) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| isNoncoding() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| isOutOfFrame() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| isVarMismatch(seg_index_t vgene, seq_len_t pos) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| n_D_alignments_storage_t typedef (defined in ymir::VDJAlignment) | ymir::VDJAlignment | |
| nDiv() const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| nJoi() const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| nuc_sequence() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| numDivAlignments(seg_index_t index) const | ymir::VDJAlignment | inline |
| numDivMismatches(seg_index_t dgene, seg_index_t align_i, seq_len_t start, seq_len_t end) const (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| nVar() const | ymir::VDJAlignment | inline |
| operator!=(const VDJAlignment &other) (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| operator==(const VDJAlignment &other) (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| recombination() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| segments_storage_t typedef (defined in ymir::VDJAlignment) | ymir::VDJAlignment | |
| seq_iterator(seq_len_t pos) const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| sequence() const | ymir::Clonotype | inline |
| sequence_type() const (defined in ymir::Clonotype) | ymir::Clonotype | inline |
| toString() const | ymir::Clonotype | inline |
| VDJAlignment(const segments_storage_t &segments, const NoGapAlignmentVector &alignments, const n_D_alignments_storage_t &n_D_alignments) (defined in ymir::VDJAlignment) | ymir::VDJAlignment | inline |
| VDJAlignment() | ymir::VDJAlignment | inlineprotected |
| ~Clonotype() (defined in ymir::Clonotype) | ymir::Clonotype | inlinevirtual |
| ~VDJAlignment() | ymir::VDJAlignment | inlinevirtual |
1.8.11
