Man pages for mikemc/tidyseq
Phyloseq extensions and improvements
| anorm | Aitchison norm of x |
| as_tibble.DNAStringSet | as_tibble for DNAStringSet |
| as_tibble.otu_table | as_tibble for otu_table |
| as_tibble.phyloseq | as_tibble for phyloseq objects |
| as_tibble.sample_data | as_tibble for sample_data |
| as_tibble.taxonomyTable | as_tibble for taxonomyTable |
| center_elts | Geometrically center the elements of x |
| close_elts | "Close" the elements of x to proportions |
| clr | Centered log-ratio transform of x. |
| diversity | True diversity of composition x (i.e., Hill numbers) |
| entropy | Shannon entropy for a vector of relative abundances |
| filter_taxa | Filter taxa based on across-sample OTU abundance criteria |
| gm_mean | Geometric mean of x. |
| gm_range | Geometric range of x. |
| gm_sd | Geometric standard deviation of x. |
| import_phyloseq_functions | Import phyloseq functions |
| logit | Convert proportions to log-odds (logit) |
| mutate_by | Mutate within groups |
| odds | Convert proportions to odds |
| otu_table-tbl_df-method | Constructor for creating otu_table from a tibble (class... |
| pipe | Pipe operator |
| reexports | Objects exported from other packages |
| sample_data-tbl_df-method | Constructor for creating sample_data from a tibble (class... |
| tax_table-tbl_df-method | Constructor for creating taxonomyTable from a tibble (class... |
| transform_sample_counts | Transform abundance data in an 'otu_table', sample-by-sample |
| xydist | Distance or dissimilarity between relative abundance vectors... |
