|
vg
tools for working with variation graphs
|
This is the complete list of members for vg::Sampler, including all inherited members.
| AbstractReadSampler(PathPositionHandleGraph &graph) | vg::AbstractReadSampler | inline |
| alignment(size_t length) | vg::Sampler | |
| alignment_pair(size_t read_length, size_t fragment_length, double fragment_std_dev, double base_error, double indel_error) | vg::Sampler | |
| alignment_seq(const Alignment &aln) | vg::Sampler | |
| alignment_to_graph(size_t length) | vg::Sampler | |
| alignment_to_path(const string &source_path, size_t length) | vg::Sampler | |
| alignment_with_error(size_t length, double base_error, double indel_error) | vg::Sampler | |
| annotate_with_path_positions(Alignment &aln) | vg::AbstractReadSampler | protected |
| annotation_path_filter | vg::AbstractReadSampler | |
| edge_cache | vg::Sampler | |
| forward_only | vg::Sampler | |
| graph | vg::AbstractReadSampler | protected |
| is_valid(const Alignment &aln) | vg::Sampler | |
| max_tries | vg::AbstractReadSampler | |
| multi_position_annotations | vg::AbstractReadSampler | |
| mutate(const Alignment &aln, double base_error, double indel_error) | vg::Sampler | |
| mutate_edit(const Edit &edit, const pos_t &position, double base_error, double indel_error, const string &bases, vg::uniform_real_distribution< double > &rprob, vg::uniform_int_distribution< int > &rbase) | vg::Sampler | |
| next_pos_chars(pos_t pos) | vg::Sampler | |
| no_Ns | vg::Sampler | |
| node_cache | vg::Sampler | |
| node_length(id_t id) | vg::Sampler | |
| nonce | vg::Sampler | |
| path_sampler | vg::Sampler | |
| pos_char(pos_t pos) | vg::Sampler | |
| position(void) | vg::Sampler | |
| rng | vg::Sampler | |
| sample_read() | vg::Sampler | |
| sample_read_pair() | vg::Sampler | |
| Sampler(PathPositionHandleGraph *x, int seed=0, bool forward_only=false, bool allow_Ns=false, const vector< string > &source_paths={}, const vector< double > &source_path_ploidies={}, const vector< pair< string, double >> &transcript_expressions={}, const vector< tuple< string, string, size_t >> &haplotype_transcripts={}) | vg::Sampler | inline |
| sequence(size_t length) | vg::Sampler | |
| set_source_paths(const vector< string > &source_paths, const vector< double > &source_path_ploidies, const vector< pair< string, double >> &transcript_expressions, const vector< tuple< string, string, size_t >> &haplotype_transcripts) | vg::Sampler | |
| source_paths | vg::Sampler | |
| total_seq_length | vg::Sampler | |
| ~AbstractReadSampler()=default | vg::AbstractReadSampler | virtual |
1.8.17