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| metacoder-package | Metacoder |
| arrange_obs | Sort columns of 'taxmap' objects |
| arrange_taxa | Sort columns of 'taxmap' objects |
| bryophytes_ex_data | Example dataset of bryophytes |
| contaminants | Example dataset of comtamination |
| diverging_palette | The defualt diverging color palette |
| extract_taxonomy | Extract taxonomy information from sequence headers |
| extract_taxonomy.default | Extract taxonomy information from sequence headers |
| extract_taxonomy.DNAbin | Extract taxonomy information from sequence headers |
| extract_taxonomy.list | Extract taxonomy information from sequence headers |
| filter_obs | Filter observations with a list of conditions |
| filter_taxa | Filter taxa with a list of conditions |
| genbank_ex_data | Fungal ITS Genbank refseq |
| hierarchies | Get classification of taxa |
| its1_ex_data | Example of ITS1 fungal data |
| layout_functions | Layout functions |
| metacoder | Metacoder |
| mutate_obs | Add columns to 'taxmap' objects |
| mutate_taxa | Add columns to 'taxmap' objects |
| n_obs | Count observations in 'taxmap' |
| n_obs_1 | Count observation assigned in 'taxmap' |
| n_subtaxa | Get number of subtaxa |
| n_subtaxa_1 | Get number of subtaxa |
| n_supertaxa | Get number of supertaxa |
| obs | Get observations associated with taxa |
| obs_data | Return observation data from 'taxmap' |
| obs_data_colnames | Get column names of obs_data |
| parse_hmp_qiime | Parse HMP QIIME results |
| parse_mothur_summary | Parse mothur classification summary file |
| parse_taxonomy_table | Parse taxonomic data in a tsv/csv file |
| pr2_ex_data | Example of PR2 SSU data |
| primersearch | Use EMBOSS primersearch for in silico PCR |
| primersearch.character | Use EMBOSS primersearch for in silico PCR |
| primersearch.taxmap | Use EMBOSS primersearch for in silico PCR |
| print.taxmap | Print a 'taxmap' object |
| qualitative_palette | The defualt qualitative color palette |
| quantative_palette | The defualt quantative color palette |
| rdp_ex_data | Example of RDP Archea data |
| read_fasta | Read a FASTA file |
| remove_redundant_names | Remove the redundant taxon names |
| roots | Get root taxa |
| sample_frac_obs | Sample a proportion of observations from 'taxmap' |
| sample_frac_taxa | Sample a proportion of taxa from 'taxmap' |
| sample_n_obs | Sample n observations from 'taxmap' |
| sample_n_taxa | Sample n taxa from 'taxmap' |
| select_obs | Subset columns in a 'taxmap' object |
| select_taxa | Subset columns in a 'taxmap' object |
| silva_ex_data | Example dataset from SILVA |
| subtaxa | Get all subtaxa of a taxon |
| supertaxa | Get all supertaxa of a taxon |
| taxmap | Create an instance of 'taxmap' |
| taxonomic_sample | Recursivly sample a set of taxonomic assignments |
| taxon_data | Return taxon data from 'taxmap' |
| taxon_data_colnames | Get column names of taxon_data |
| transmute_obs | Replace columns in 'taxmap' objects |
| transmute_taxa | Replace columns in 'taxmap' objects |
| unite_ex_data_1 | Example of UNITE fungal ITS data |
| unite_ex_data_2 | Example of UNITE fungal ITS data |
| unite_ex_data_3 | Example of UNITE fungal ITS data |