Man pages for larssnip/microclass
Tools for taxonomic classification of prokaryotes
| blastClassify16S | Classifying using BLAST |
| blastDbase16S | Building a BLAST database |
| bracken_read_report | Reads bracken reports |
| branch_list2qiime | Branch list to QIIME format |
| branch_list2table | Branch list na dtable conversion |
| branch_prune | Filtering ranks in branches |
| branch_retrieve | Retrieves branches |
| branch_taxid2name | Replace tax_id with name |
| clr | Centred log-ratio transform |
| getDomain | Extractor functions for QIIME taxonomy |
| KmerCount | K-mer counting |
| kraken2_read_report | Reads 'kraken2' reports |
| kraken2_read_table | Reads raw 'kraken2' output |
| microclass-package | Methods for 16S based taxonomic classification of prokaryotes |
| multinomClassify | Classifying with a Multinomial model |
| multinomTrain | Training multinomial model |
| rdpClassify | Classifying with the RDP classifier |
| rdpTrain | Training the RDP classifier |
| read_names_dmp | Read and write the names.dmp |
| read_nodes_dmp | Read and write the nodes.dmp |
| setParallel | Set number of parallel threads |
| small.16S | A small example data set |
| subset_clade | Subset the taxonomy tree from the root |
| subset_tree | Subset the taxonomy tree from leaves |
| taxMachine | Classifying 16S sequences |
