API for SeqFeatR
A Tool to Associate FASTA Sequences and Features
| Global functions | |
|---|---|
| HLA_and_tree_inner | Source code |
| KD | Source code |
| SeqFeatR_GUI | Man page |
| about | Source code |
| add_correction | Source code |
| add_correction_cm | Source code |
| addtolist | Source code |
| assocpair | Man page |
| assocpairfeat | Man page |
| assocpoint | Man page |
| assocpointhierarchical | Man page |
| assocpointpair | Man page |
| assoctuple | Man page |
| attach.config | Source code |
| bayes_fac | Source code |
| both_are_different | Source code |
| calculate_co_mut | Source code |
| calculate_co_mut_graphics | Source code |
| calculate_co_mut_graphics_both | Source code |
| calculate_founder | Source code |
| calculate_length | Source code Source code Source code |
| calculate_pos_epi | Source code |
| calculate_pos_epi_further | Source code |
| calculate_q_value | Source code |
| calculate_qvalues_inner | Source code |
| check_K | Source code |
| check_allels | Source code |
| check_bayes_factor | Source code |
| check_dna | Source code |
| check_for_pos_epi_mut_core_inner | Source code |
| check_ident | Source code |
| check_offset | Source code |
| check_phylo | Source code |
| cm_wo_create_mini_table | Source code |
| cm_wo_inside_main | Source code |
| cm_wo_make_HLA_types_array | Source code |
| cm_wo_make_char_array | Source code |
| cm_wo_make_pair_array | Source code |
| comparewithancestral | Man page |
| create_ancestral_sequences | Source code |
| create_correct_FASTA_input | Source code Source code Source code Source code Source code Source code Source code Source code |
| create_mini_table_tr | Source code |
| create_pos_epi_csv | Source code Source code |
| create_pos_epi_plot | Source code Source code |
| create_sequence_graphic_G | Source code |
| create_sequence_graphic_inner | Source code |
| easyGregexpr | Source code Source code |
| find.neqzero | Source code Source code Source code Source code Source code |
| find_epitope_in_given_sequence | Source code Source code |
| find_possible_epitopes_inner | Source code |
| find_possible_epitopes_inner_hierach | Source code |
| find_smallest_cluster_number | Source code Source code |
| founder_eliminator_main_inner | Source code |
| foundereffectfinder | Man page |
| generate_example_config | Source code |
| generate_example_config_wo_HLA | Source code |
| generate_example_fasta | Source code |
| get.threshold.f.fisher.pair | Source code |
| getFASTAfile | Source code |
| get_10_based | Source code Source code |
| get_AA_from_consensus | Source code |
| get_ancestral_for_this_position | Source code |
| get_freqs | Source code |
| get_freqs_inner | Source code |
| get_identifier | Source code |
| get_intres | Source code |
| get_label_right | Source code |
| get_original_sequence | Source code |
| get_original_sequence_ph | Source code |
| get_p_fish | Source code |
| get_seqs_for_certain_position | Source code |
| get_shared_mutations_inside | Source code |
| getcsvfile | Source code |
| getfreqs | Man page |
| getnexusfile | Source code |
| has_C_allel | Source code |
| inside_main | Source code |
| inside_main_tr | Source code |
| mai | Source code |
| make_HLA_types_array | Source code |
| make_array | Source code |
| make_char_array | Source code Source code |
| make_fisher_test | Source code |
| make_pair_array | Source code |
| make_spare_room | Source code |
| make_special_pair_array | Source code Source code |
| open_tutorial | Source code |
| orPlot | Man page |
| qvalues | Man page |
| read.config | Source code |
| remove.zeroes | Source code Source code Source code Source code Source code Source code Source code |
| remove_only_ones | Source code |
| reverselog_trans | Source code |
| rewrite_shared_mutations | Source code |
| rewrite_shared_mutations_result_inner | Source code |
| rewritetuple | Man page |
| rotate | Source code |
| save_config | Source code |
| shared_mutations | Source code |
| small_manhattan | Source code |
| smallmanhattan | Man page Source code |
| smallmanhattan_inner | Source code |
| tartan | Man page |
| test_for_comutation_inner | Source code |
| test_for_comutation_only_graphics_inner | Source code |
| test_for_comutation_only_graphics_wo_allels_2_inner | Source code |
| test_for_comutation_only_graphics_wo_allels_inner | Source code |
| test_for_comutation_without_allel_inner | Source code |
| test_for_occurence | Source code Source code |
| test_if_in_one_cluster | Source code Source code |
| test_if_same_branch | Source code |
| test_if_same_subtree | Source code |
| two_wo_set_input_file_known_sequences | Source code |
| visualizepair | Man page |
| visualizepairfeat | Man page |
| volcanoplot | Man page |
| volcanoplot_inner | Source code |
