API for charlotterich/immunarch_code
Painless Bioinformatics Analysis of T-Cell and B-Cell Immune Repertoires in R
| Global functions | |
|---|---|
| .colourblind_vector | Source code |
| .quant_column_choice | Man page |
| AA_PROP | Man page |
| AA_TABLE | Man page |
| AA_TABLE_REVERSED | Man page |
| ATCHLEY | Man page |
| GENE_SEGMENTS | Man page |
| KIDERA | Man page |
| aa_prop | Man page |
| aa_properties | Man page |
| aa_table | Man page |
| add_class | Man page |
| add_pb | Man page |
| apply_asymm | Man page |
| apply_symm | Man page |
| atchley | Man page |
| bunch_translate | Man page |
| chao1 | Man page |
| check_distribution | Man page |
| clonal.prop | Man page |
| clonal_proportion | Man page |
| clonal_space_homeostasis | Man page |
| clonality | Man page |
| coding | Man page |
| cosine_sim | Man page |
| cosine_sim.default | Source code |
| cosine_sim.numeric | Source code |
| cross_entropy | Man page |
| dbAnnotate | Man page |
| dbLoad | Man page |
| diversity_eco | Man page |
| entropy | Man page |
| fill_reads | Source code |
| fill_vec | Source code |
| filter_barcodes | Man page |
| fixVis | Man page |
| geneUsage | Man page |
| geneUsageAnalysis | Man page |
| gene_segments | Man page |
| gene_stats | Man page |
| genes | Man page |
| get.kmers | Man page |
| getKmers | Man page |
| get_aliases | Man page |
| get_genes | Man page |
| gini_coef | Man page |
| gini_simpson | Man page |
| group_from_metadata | Man page |
| has_class | Man page |
| hill_numbers | Man page |
| horn_index | Man page |
| immdata | Man page |
| immunarch_data_format | Man page |
| immunr_data_format | Man page |
| immunr_dbscan | Man page |
| immunr_hclust | Man page |
| immunr_kmeans | Man page |
| immunr_mds | Man page |
| immunr_pca | Man page |
| immunr_tsne | Man page |
| inc_overlap | Man page |
| inframes | Man page |
| inverse_simpson | Man page |
| jaccard_index | Man page |
| jaccard_index.character | Source code |
| jaccard_index.default | Source code |
| js_div | Man page |
| kidera | Man page |
| kl_div | Man page |
| kmer_profile | Man page |
| makeKmerTable | Man page |
| matrixdiagcopy | Man page |
| morisita_index | Man page |
| noncoding | Man page |
| num2bin | Source code |
| num_shared_clonotypes | Man page |
| outofframes | Man page |
| overlap_coef | Man page |
| overlap_coef.character | Source code |
| overlap_coef.default | Source code |
| process_col_argument | Man page |
| properties | Man page |
| pubRep | Man page |
| pubRepApply | Man page |
| pubRepFilter | Man page |
| pubRepStatistics | Man page |
| publicRepertoire | Man page |
| publicRepertoireApply | Man page |
| publicRepertoireFilter | Man page |
| public_matrix | Man page |
| rare_proportion | Man page |
| rarefaction | Man page |
| repClonality | Man page |
| repDiversity | Man page Source code |
| repExplore | Man page |
| repLoad | Man page |
| repOverlap | Man page |
| repOverlapAnalysis | Man page |
| repSample | Man page |
| repSave | Man page |
| save_immunarch | Source code |
| save_vdjtools | Source code |
| segments | Man page |
| set_pb | Man page |
| spectratype | Man page |
| split_immunoseq_files | Man page |
| split_to_kmers | Man page |
| switch_type | Man page Source code |
| top | Man page |
| top_proportion | Man page |
| trackClonotypes | Man page |
| translate_bunch | Man page |
| tversky_index | Man page |
| tversky_index.character | Source code |
| tversky_index.default | Source code |
| vis | Man page |
| vis.immunr_chao1 | Man page |
| vis.immunr_clonal_prop | Man page |
| vis.immunr_dbscan | Man page |
| vis.immunr_div | Man page |
| vis.immunr_dxx | Man page |
| vis.immunr_dynamics | Man page |
| vis.immunr_exp_clones | Man page |
| vis.immunr_exp_count | Man page |
| vis.immunr_exp_len | Man page |
| vis.immunr_exp_vol | Man page |
| vis.immunr_gene_usage | Man page |
| vis.immunr_ginisimp | Man page |
| vis.immunr_gu_matrix | Man page |
| vis.immunr_hclust | Man page |
| vis.immunr_hill | Man page |
| vis.immunr_homeo | Man page |
| vis.immunr_inc_overlap | Man page |
| vis.immunr_invsimp | Man page |
| vis.immunr_kmeans | Man page |
| vis.immunr_kmer_table | Man page |
| vis.immunr_mds | Man page |
| vis.immunr_ov_matrix | Man page |
| vis.immunr_pca | Man page |
| vis.immunr_public_repertoire | Man page |
| vis.immunr_public_statistics | Man page |
| vis.immunr_rarefaction | Man page |
| vis.immunr_tail_prop | Man page |
| vis.immunr_top_prop | Man page |
| vis.immunr_tsne | Man page |
| vis_bar | Man page |
| vis_box | Man page |
| vis_circos | Man page |
| vis_heatmap | Man page |
| vis_heatmap2 | Man page |
| vis_hist | Man page |
| vis_immunr_kmer_profile_main | Man page |
| vis_public_clonotypes | Man page |
| vis_public_frequencies | Man page |
| vis_radar | Man page |
| vis_seqlogo | Man page |
| vis_textlogo | Man page |
| vis_treemap | Man page |
