API for wu-lab-uva/RasperGade16S
Prediction of 16S rRNA GCN with RasperGade
| Global functions | |
|---|---|
| RasperGade16S.GG.13.8.mask.keys | Man page |
| RasperGade16S.SILVA.GCN | Man page |
| RasperGade16S.refGCN | Man page |
| RasperGade16S.refdata | Man page |
| RasperGade16S.reftree | Man page |
| align_with_HMM_and_trim | Man page Source code |
| calculateACN | Source code |
| calculateACN_CI_bySimulation | Source code |
| calculate_Aitchison_dist | Source code |
| check_partition | Man page Source code |
| classify_oligotrphic_community_by_ACN | Source code |
| classify_oligotrphic_community_by_ACN_with_confidence | Source code |
| classify_oligotrphic_community_by_abundance | Source code |
| classify_oligotrphic_community_by_abundance_with_confidence | Source code |
| correct_GCN | Source code |
| correct_PERMANOVA | Source code |
| correct_PERMANOVA_with_confidence | Source code |
| correct_RAD | Source code |
| correct_RAD_with_confidence | Source code |
| correct_abundance_table | Source code |
| correct_abundance_table_with_SILVA | Source code |
| correct_distance_matrix | Source code |
| correct_distance_matrix_with_confidence | Source code |
| correct_randomforest | Source code |
| correct_randomforest_with_confidence | Source code |
| coverage_dist | Source code |
| coverage_length | Source code |
| elementwise_coverage_dist | Source code |
| get_connected_nodes | Man page Source code |
| get_partition_AIC | Man page Source code |
| get_partition_transition | Man page Source code |
| insert_query_with_EPA | Man page Source code |
| mean_support | Source code |
| parse_jplace | Man page Source code |
| partition_phylogeny_by_AIC_single | Man page Source code |
| predict_16SGCN_from_jplace | Man page Source code |
| predict_16SGCN_from_sequences | Man page Source code |
| randomforest_cross_validation | Source code |
| rank_square_difference | Source code |
| refine_partition | Man page Source code |
| relative_abundance | Man page Source code |
| rescale_tree_by_partition_and_model | Man page Source code |
| sample_GCN_from_error_distribution | Source code |
| square_difference | Source code |
| total_shift | Source code |
| trim_sequence_with_mask | Man page Source code |
