R: Marine Benthic Ecosystem Analysis

# Marine Benthic Ecosystem Analysis

## Documentation for package ‘benthos’ version 1.3-9

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

benthos-package | Marine Benthic Ecosystem Analysis
.pool | Pooling
abundance | Abundance
abundance_ | Abundance
ambi | AZTI Marine Biotic Index (AMBI)
ambi_ | AZTI Marine Biotic Index (AMBI)
as_accepted | Convert Taxon Names to Comply with WoRMS/TWN
benthos | Marine Benthic Ecosystem Analysis
bray_curtis | Bray-Curtis Dissimilarity
eqr | Ecological Quality Ratio (EQR)
generic_name | Binomial Names 'is_binomial' tests for valid binomial names, 'generic_name' extracts the genus to which the species belongs, 'specific_name' extracts the species within the genus.
genus_to_species | Genus to Species Conversion
get_ambi | Get Supplementary AMBI Sensitivity Groups
get_iti | Get Infaunal Trophic Index
get_taxa | Read and Validate Taxa Data
get_worms | Read and Validate Taxa Waterbeheer Nederland (TWN) Data
harmonize | Harmonize Case
has_ambi | AZTI Marine Biotic Index (AMBI)
has_ambi_ | AZTI Marine Biotic Index (AMBI)
has_iti | Infaunal Trophic Index (ITI)
has_iti_ | Infaunal Trophic Index (ITI)
hill | Hill's Diversity Numbers
hill0 | Hill's Diversity Numbers
hill0_ | Hill's Diversity Numbers
hill1 | Hill's Diversity Numbers
hill1_ | Hill's Diversity Numbers
hill2 | Hill's Diversity Numbers
hill2_ | Hill's Diversity Numbers
hill_ | Hill's Diversity Numbers
hpie | Hurlbert's Probability of Interspecific Encounter (PIE)
hpie_ | Hurlbert's Probability of Interspecific Encounter (PIE)
hurlbert | Hurlbert's Expected Number of Species
hurlbert_ | Hurlbert's Expected Number of Species
is_accepted | Convert Taxon Names to Comply with WoRMS
is_accepted_ | Convert Taxon Names to Comply with WoRMS
is_azoic | Test for Azoic Samples
is_binomen | Binomial Names 'is_binomial' tests for valid binomial names, 'generic_name' extracts the genus to which the species belongs, 'specific_name' extracts the species within the genus.
is_worms | Convert Taxon Names to Comply with WoRMS
is_worms_ | Convert Taxon Names to Comply with WoRMS
iti | Infaunal Trophic Index (ITI)
iti_ | Infaunal Trophic Index (ITI)
lnn | Total Abundance
lnn_ | Total Abundance
margalef | Margalef Index of Diversity
margalef_ | Margalef Index of Diversity
northsea | MWTL North Sea Bentos Data
oosterschelde | Oosterschelde Marine Benthos Data
pool | Pooling
read_ambi | Read and Validate AMBI Sensitivity Data
read_beqi2 | Read and Validate BEQI2 Input Files
read_iti | Read and Validate Infaunal Trophic Index Files
read_ref | Read and Validate Habitat References Files
read_taxa | Read and Validate Taxa Data
read_twn | Read and Validate Taxa Waterbeheer Nederland (TWN) Data
rygg | Rygg's Index of Diversity
rygg_ | Rygg's Index of Diversity
shannon | Shannon's Index or Entropy
shannon_ | Shannon's Index or Entropy
simpson | Simpson's Measure of Concentration
simpson_ | Simpson's Measure of Concentration
species_richness | Species Richness
species_richness_ | Species Richness
specific_name | Binomial Names 'is_binomial' tests for valid binomial names, 'generic_name' extracts the genus to which the species belongs, 'specific_name' extracts the species within the genus.
strip_sp | Binomial Names 'is_binomial' tests for valid binomial names, 'generic_name' extracts the genus to which the species belongs, 'specific_name' extracts the species within the genus.
strip_spaces | Remove Redundant Spaces
total_abundance | Total Abundance
total_abundance_ | Total Abundance
to_worms | Convert Taxon Names to Comply with WoRMS
validate_ambi | Read and Validate AMBI Sensitivity Data
validate_beqi2 | Read and Validate BEQI2 Input Files
validate_iti | Read and Validate Infaunal Trophic Index Files
validate_ref | Read and Validate Habitat References Files
validate_taxa | Read and Validate Taxa Data
validate_twn | Read and Validate Taxa Waterbeheer Nederland (TWN) Data