API for MiscMetabar
Miscellaneous Functions for Metabarcoding Analysis
| Global functions | |
|---|---|
| LCBD_pq | Man page Source code |
| MiscMetabar-deprecated | Man page |
| MiscMetabar-package | Man page |
| SRS_curve_pq | Man page Source code |
| Tengeler2020_pq | Man page |
| accu_plot | Man page Source code |
| accu_plot_balanced_modality | Man page Source code |
| accu_samp_threshold | Man page Source code |
| add_blast_info | Man page Source code |
| add_dna_to_phyloseq | Man page Source code |
| add_funguild_info | Man page Source code |
| add_info_to_sam_data | Man page Source code |
| add_new_taxonomy_pq | Man page Source code |
| adonis_phyloseq | Man page Source code |
| adonis_pq | Man page Source code |
| adonis_rarperm_pq | Man page Source code |
| all_object_size | Man page Source code |
| ancombc_pq | Man page Source code |
| are_modality_even_depth | Man page Source code |
| as_binary_otu_table | Man page Source code |
| assign_blastn | Man page Source code |
| assign_dada2 | Man page Source code |
| assign_idtaxa | Man page Source code |
| assign_sintax | Man page Source code |
| assign_vsearch_lca | Man page Source code |
| asv2otu | Man page |
| biplot_physeq | Man page Source code |
| biplot_pq | Man page Source code |
| blast_pq | Man page Source code |
| blast_to_derep | Man page Source code |
| blast_to_phyloseq | Man page Source code |
| build_phytree_pq | Man page Source code |
| chimera_detection_vs | Man page Source code |
| chimera_removal_vs | Man page Source code |
| circle_pq | Man page Source code |
| clean_physeq | Man page Source code |
| clean_pq | Man page Source code |
| compare_pairs_pq | Man page Source code |
| count_seq | Man page Source code |
| cutadapt_remove_primers | Man page Source code |
| data_fungi | Man page |
| data_fungi_mini | Man page |
| data_fungi_sp_known | Man page |
| diff_fct_diff_class | Man page Source code |
| dist_bycol | Man page Source code |
| dist_pos_control | Man page Source code |
| distri_1_taxa | Man page Source code |
| fac2col | Man page Source code |
| filt_taxa_pq | Man page Source code |
| filt_taxa_wo_NA | Man page |
| filter_asv_blast | Man page Source code |
| filter_taxa_blast | Man page |
| filter_trim | Man page Source code |
| format2dada2 | Man page |
| format2dada2_species | Man page |
| format2sintax | Man page Source code |
| formattable_pq | Man page Source code |
| funguild_assign | Man page Source code |
| funky_color | Man page |
| get_file_extension | Man page Source code |
| get_funguild_db | Man page Source code |
| ggVenn_phyloseq | Man page Source code |
| ggaluv_pq | Man page |
| ggbetween_pq | Man page Source code |
| ggscatt_pq | Man page |
| ggvenn_pq | Man page Source code |
| glmutli_pq | Man page Source code |
| graph_test_pq | Man page Source code |
| hill_curves_pq | Man page |
| hill_phyloseq | Man page Source code |
| hill_pq | Man page Source code |
| hill_test_rarperm_pq | Man page Source code |
| hill_tuckey_phyloseq | Man page Source code |
| hill_tuckey_pq | Man page Source code |
| iNEXT_pq | Man page Source code |
| is_cutadapt_installed | Man page Source code |
| is_falco_installed | Man page Source code |
| is_krona_installed | Man page Source code |
| is_mumu_installed | Man page Source code |
| is_swarm_installed | Man page Source code |
| is_vsearch_installed | Man page Source code |
| krona | Man page Source code |
| learn_idtaxa | Man page Source code |
| list_fastq_files | Man page Source code |
| lulu | Man page Source code |
| lulu_phyloseq | Man page Source code |
| lulu_pq | Man page Source code |
| merge_krona | Man page Source code |
| merge_samples2 | Man page |
| merge_samples2,otu_table-method | Man page |
| merge_samples2,phyloseq-method | Man page |
| merge_samples2,sample_data-method | Man page |
| merge_taxa_vec | Man page |
| merge_taxa_vec,XStringSet-method | Man page |
| merge_taxa_vec,otu_table-method | Man page |
| merge_taxa_vec,phylo-method | Man page |
| merge_taxa_vec,phyloseq-method | Man page |
| merge_taxa_vec,taxonomyTable-method | Man page |
| multi_biplot_pq | Man page Source code |
| multipatt_pq | Man page Source code |
| multiple_share_bisamples | Source code |
| multiplot | Man page Source code |
| multitax_bar_pq | Man page Source code |
| mumu_pq | Man page Source code |
| no_legend | Man page |
| normalize_prop_pq | Man page Source code |
| otu_circle | Man page Source code |
| perc | Man page Source code |
| phyloseq_to_edgeR | Man page Source code |
| physeq_graph_test | Man page Source code |
| physeq_or_string_to_dna | Man page Source code |
| plot_LCBD_pq | Man page Source code |
| plot_SCBD_pq | Man page Source code |
| plot_ancombc_pq | Man page Source code |
| plot_complexity_pq | Man page |
| plot_deseq2_phyloseq | Man page Source code |
| plot_deseq2_pq | Man page Source code |
| plot_edgeR_phyloseq | Man page Source code |
| plot_edgeR_pq | Man page Source code |
| plot_guild_pq | Man page Source code |
| plot_mt | Man page Source code |
| plot_refseq_extremity_pq | Man page |
| plot_refseq_pq | Man page |
| plot_tax_pq | Man page Source code |
| plot_tsne_pq | Man page Source code |
| plot_var_part_pq | Man page Source code |
| postcluster_pq | Man page Source code |
| psmelt_samples_pq | Man page Source code |
| rarefy_sample_count_by_modality | Man page Source code |
| read_phyloseq | Man page Source code |
| read_pq | Man page Source code |
| rename_samples | Man page Source code |
| rename_samples_otu_table | Man page Source code |
| reorder_taxa_pq | Man page Source code |
| resolve_vector_ranks | Man page Source code |
| ridges_pq | Man page Source code |
| rotl_pq | Man page Source code |
| sam_data_matching_names | Man page Source code |
| sample_data_with_new_names | Man page Source code |
| sankey_phyloseq | Man page Source code |
| sankey_pq | Man page Source code |
| save_pq | Man page Source code |
| search_exact_seq_pq | Man page Source code |
| select_one_sample | Man page Source code |
| select_taxa | Man page |
| select_taxa,XStringSet,character-method | Man page |
| select_taxa,otu_table,character-method | Man page |
| select_taxa,phylo,character-method | Man page |
| select_taxa,phyloseq,character-method | Man page |
| select_taxa,sample_data,character-method | Man page |
| select_taxa,taxonomyTable,character-method | Man page |
| signif_ancombc | Man page Source code |
| simplify_taxo | Man page Source code |
| subsample_fastq | Man page Source code |
| subset_samples_pq | Man page Source code |
| subset_taxa_pq | Man page Source code |
| subset_taxa_tax_control | Man page Source code |
| summary_plot_phyloseq | Man page Source code |
| summary_plot_pq | Man page Source code |
| swarm_clustering | Man page Source code |
| tax_bar_pq | Man page Source code |
| tax_datatable | Man page Source code |
| taxa_as_columns | Man page Source code |
| taxa_as_rows | Man page Source code |
| taxa_only_in_one_level | Man page Source code Source code |
| tbl_sum_samdata | Man page Source code |
| tbl_sum_taxtable | Man page Source code |
| track_wkflow | Man page Source code |
| track_wkflow_samples | Man page Source code |
| transp | Man page Source code |
| treemap_pq | Man page Source code |
| tsne_pq | Man page Source code |
| umap_pq | Man page |
| unique_or_na | Man page |
| upset_pq | Man page Source code |
| upset_test_pq | Man page Source code |
| var_par_pq | Man page Source code |
| var_par_rarperm_pq | Man page Source code |
| venn_phyloseq | Man page Source code |
| venn_pq | Man page Source code |
| verify_pq | Man page Source code |
| vs_search_global | Man page Source code |
| vsearch_clustering | Man page Source code |
| write_phyloseq | Man page Source code |
| write_pq | Man page Source code |
| write_temp_fasta | Source code |
