Man pages for OTUtable
North Temperate Lakes - Microbial Observatory 16S Time Series Data and Functions
| bog_subset | Subset OTU table by sampling site |
| chao1 | Chao1 Richness |
| clean_mothur_taxonomy | Clean mothur-format Taxonomy File |
| clean_shared | Reformat a shared file |
| clean_TaxAss_taxonomy | Clean Taxonomy File Output by TaxAss Workflow |
| combine_otus | Combine OTUs based on identical taxonomic assignments |
| extract_date | Extract sampling date from a vector of sample names |
| filter_otus | Filter Taxa Based on Abundance and Persistence |
| grab_group | Subset OTU table by taxonomic assignment |
| make_do_matrix | Make matrix of dissolved oxygen data |
| make_temp_matrix | Make matrix of temperature data |
| metadata | Lake metadata for OTU table |
| obs_richness | Observed Richness |
| otu_table | OTU table generated from 8 bog lakes over 4 years |
| OTUtable-package | OTU table analysis functions |
| pielou | Pielou's Evenness |
| plot_column | Plot DO or temperature data from a depth profile over time |
| reduce_names | Shorten taxonomic assignment in table row names |
| remove_reps | Remove the second replicate of each sample, when it exists |
| rotate | Rotate a matrix |
| shannon | Shannon's Biodiversity Index |
| taxonomy | Taxonomic assignments of OTUs |
| year_subset | Subset samples by a specific year |
| zscore | Z-score normalize relative abundance data |
