Man pages for zsmith27/Benthos
Benthos
| abundance | Abundance |
| all_metrics | Run All Metrics |
| becks | Beck's Index |
| benthos_cheat | Benthos Cheat |
| blank_col | Temporary vector with zero values |
| calc_pct_taxa | The percentage each taxon makes up of a sample |
| calc_richness | Internal Use: Calculate Richness |
| clean_up | Data Clean Up |
| data_prep | Data Prep |
| drbc_data_prep | Prepare the DRBC Data |
| drbc_master_prep | Prepare the DRBC Attributes Table |
| effective_richness | Effective Number of Taxa |
| ept_rich_no_tol | EPT Richness Excluding Tolerant Taxa |
| fairfax_attributes_prep | Prepare the Fairfax County Taxonomic Attributes Table |
| fairfax_data_prep | Prepare the Fairfax County Data |
| fill_taxa | Fill empty rows with lowest level of |
| gold | Proportion of Gastropoda, Oligochaeta, and Dipteran... |
| group_rich | Vector of taxa richness for a specific list of taxa |
| group_taxa | Data Frame of a specific list of taxa |
| hurlberts_pie | Probability of Interspecific Encounter (PIE) |
| long | Long Data Frame Transform taxa count data from wide to a long... |
| margalefs | Margalef's Index |
| menhinicks | Menhinick's Index |
| nysdec_data_prep | Prepare the NYSDEC SBU Data |
| nysdec_data_prep_old | Prepare the NYSDEC SBU Data |
| nysdec_master_prep | Prepare the NYSDEC Master Taxa List |
| ohio_epa_metrics | Ohio Environmental Protection Agency Metrics |
| ohio_pct_tolerant | Ohio EPA Percentage of Tolerant Taxa |
| pct_acid_tol | Acid Tolerance Index (ATI) |
| pct_annelid_chiro | Percentage of Annelid and Chironomid Individuals |
| pct_attribute | The percent of a group |
| pct_cc_chironomidae | Percentage of Chironomids Identified as Chironomus and... |
| pct_cote | Percentage of COTE Individuals |
| pct_dom | Percentage of the Most Dominant Taxon (Taxa) |
| pct_dom1_group | The percent of the most dominant group |
| pct_epmeroptera_no_baetid | Percentage of Ephemeropteran Individuals Minus Baetid |
| pct_ept | Percentage of EPT Individuals |
| pct_ept_cheumatopsyche | Percent EPT Minus Cheumatopsyche |
| pct_ept_hydro_baetid | Percentage of EPT Individuals Minus Hydropsychid and Baetid... |
| pct_ept_hydropsyche | Percent EPT minus Hydropsyche |
| pct_ept_no_hydro | Percentage of EPT Individuals Minus Hydropsychid Individuals |
| pct_ept_rich | EPT Percent Taxa Richness |
| pct_ept_rich_no_tol | Percentage of EPT Taxa Excluding Tolerant Taxa |
| pct_hydro_ept | Percentage EPT Individuals Identified as Hydropsychids |
| pct_hydro_trichoptera | Percentage of Trichopterans Represented by Hydropsychids |
| pct_limestone | Percentage of Limestone Individuals |
| pct_non_tanytarsini_non_insecta | Percentage of Non-Tanytarsini Diptera and Non-Insecta |
| pct_oligo_chiro | Percentage of Oligochaet and Chironomid Individuals |
| pct_orthocladiinae | Percentage of Orthocladiinae |
| pct_potec | Percentage of POTEC Individuals |
| pct_taxon | Percentage of a Specified Taxon |
| pct_tol_val | Percentage of Intolerant Individuals |
| pct_trichoptera_no_hydro | Percentage of Trichopterans Minus Hydropsychids |
| pct_trichoptera_no_tolerant | Percentage of EPT Taxa Excluding Tolerant Taxa |
| pct_unidentified | Percentage of Unidentified Individuals |
| pct_urban_intol | ***Percentage of Urban Intolerant Individuals*** |
| pielou | Pielou's Evenness |
| rich_attribute | The richness of a group |
| rich_by_rank | Richness of All Taxon |
| rich_cote | COTE Richness |
| rich_ephem_epeorus | Ephemeropteran Richness minus Epeorus |
| rich_ept | EPT Richness |
| rich_nco | Non-Chironomid and Oligochaet Taxa Richness |
| rich_potec | POTEC Richness |
| rich_tolerance | Richness of Tolerance Group |
| select_metrics | Run All Metrics |
| seq_pct_taxa | The percentage each taxon makes up of a sample |
| seq_taxa_rich | Sequence Through and Calculate the Richness of All Taxon |
| shannon | Shannon Wiener Diversity Index |
| simpsons | Simpson's Diversity Index |
| taxon_richness | Taxon Richness |
| tol_index | Compute Tolerance Indices |
| tol_pres_abs | Tolerance Index for Presence/Absence |
| wide | Wide Data Frame Transform taxa count data from long to wide... |
