Man pages for ClassifyITS
Fungal Assignment Pipeline
| best_hit_taxonomy_assignment | Hierarchical best-hit taxonomy assignment with per-rank... |
| check_N | Check proportion of N bases in each sequence. |
| consensus_taxonomy_assignment | Per-rank consensus filter for taxonomy assignment |
| easy_assignments | Easy taxonomy assignment for OTUs using BLAST QC output &... |
| ensure_cols | Ensure data frame has all required columns (as character) |
| ITS_assignment | Complete Fungal Assignment Pipeline |
| load_and_check | Load and check BLAST results and rep-seq FASTA |
| parse_taxonomy_cutoffs | Parse taxonomy cutoffs file |
| plot_alignment_hist | Create and return alignment length histogram (ggplot object) |
| safe_rbind_list | Safely rbinds list of data frames, ensuring columns match |
| save_taxonomy_graphics | Save taxonomy summary charts and tables to multi-page PDF |
| trim_alignments | Trim BLAST alignments by minimum length |
| write_initial_assignments | Create and write the initial assignments table including... |
