API for transite
RNA-binding protein motif analysis
| Global functions | |
|---|---|
| .RBPMotif | Man page |
| .SpectrumScore | Man page |
| .onLoad | Source code |
| RBPMotif-class | Man page |
| SpectrumScore-class | Man page |
| cached_score_sequences_helper | Source code |
| calculate_kmer_enrichment | Man page Source code |
| calculate_local_consistency | Man page Source code |
| calculate_motif_enrichment | Man page Source code |
| calculate_transcript_mc | Man page Source code |
| check_kmers | Man page Source code |
| classify_spectrum | Man page Source code |
| compute_kmer_enrichment | Man page Source code |
| count_homopolymer_corrected_kmers | Man page Source code |
| create_kmer_motif | Man page Source code |
| create_matrix_motif | Man page Source code |
| draw_volcano_plot | Man page Source code |
| estimate_significance | Man page Source code |
| estimate_significance_core | Man page Source code |
| ge | Man page |
| generate_iupac_by_kmers | Man page Source code |
| generate_iupac_by_matrix | Man page Source code |
| generate_kmers | Man page Source code |
| generate_kmers_from_iupac | Man page Source code |
| generate_permuted_enrichments | Man page Source code |
| geometric_mean | Man page Source code |
| get_adj_r_squared | Man page |
| get_adj_r_squared,SpectrumScore-method | Man page |
| get_consistency_score | Man page |
| get_consistency_score,SpectrumScore-method | Man page |
| get_consistency_score_n | Man page |
| get_consistency_score_n,SpectrumScore-method | Man page |
| get_consistency_score_p_value | Man page |
| get_consistency_score_p_value,SpectrumScore-method | Man page |
| get_heptamers | Man page |
| get_heptamers,RBPMotif-method | Man page |
| get_hexamers | Man page |
| get_hexamers,RBPMotif-method | Man page |
| get_id | Man page |
| get_id,RBPMotif-method | Man page |
| get_iupac | Man page |
| get_iupac,RBPMotif-method | Man page |
| get_lock_object | Source code |
| get_model_degree | Man page |
| get_model_degree,SpectrumScore-method | Man page |
| get_model_f_statistic | Man page |
| get_model_f_statistic,SpectrumScore-method | Man page |
| get_model_f_statistic_p_value | Man page |
| get_model_f_statistic_p_value,SpectrumScore-method | Man page |
| get_model_residuals | Man page |
| get_model_residuals,SpectrumScore-method | Man page |
| get_model_slope | Man page |
| get_model_slope,SpectrumScore-method | Man page |
| get_motif_by_id | Man page Source code |
| get_motif_by_rbp | Man page Source code |
| get_motif_matrix | Man page |
| get_motif_matrix,RBPMotif-method | Man page |
| get_motifs | Man page Source code |
| get_motifs_meta_info | Man page Source code |
| get_ppm | Man page Source code |
| get_rbps | Man page |
| get_rbps,RBPMotif-method | Man page |
| get_source | Man page |
| get_source,RBPMotif-method | Man page |
| get_species | Man page |
| get_species,RBPMotif-method | Man page |
| get_type | Man page |
| get_type,RBPMotif-method | Man page |
| get_width | Man page |
| get_width,RBPMotif-method | Man page |
| init_iupac_lookup_table | Man page Source code |
| kmers_enrichment | Man page |
| lock | Source code |
| motifs | Man page |
| p_combine | Man page Source code |
| plot,RBPMotif,ANY-method | Man page |
| plot,RBPMotif-method | Man page |
| plot,SpectrumScore,ANY-method | Man page |
| plot,SpectrumScore-method | Man page |
| read_motif_cache | Source code |
| run_kmer_spma | Man page Source code |
| run_kmer_tsma | Man page Source code |
| run_matrix_spma | Man page Source code |
| run_matrix_tsma | Man page Source code |
| score_sequences | Man page Source code |
| score_sequences_helper | Source code |
| score_spectrum | Man page Source code |
| score_transcripts | Man page Source code |
| score_transcripts_single_motif | Man page Source code |
| set_motifs | Man page Source code |
| show,RBPMotif-method | Man page |
| show,SpectrumScore-method | Man page |
| subdivide_data | Man page Source code |
| toy_motif_matrix | Man page |
| transite | Man page |
| unlock | Source code |
| write_motif_cache | Source code |
