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BEQI2 (version 2.0-0)

Benthic Ecosystem Quality Index 2

Description

Tool for analysing benthos data. It estimates several quality indices like the total abundance of species, species richness, Margalef's d, AZTI Marine Biotic Index (AMBI), and the BEQI-2 index. Furthermore, additional (optional) features are provided that enhance data preprocessing: (1) genus to species conversion, i.e.,taxa counts at the taxonomic genus level can optionally be converted to the species level and (2) pooling: small samples are combined to bigger samples with a standardized size to (a) meet the data requirements of the AMBI, (b) generate comparable species richness values and (c) give a higher benthos signal to noise ratio.

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Version

Install

install.packages('BEQI2')

Monthly Downloads

37

Version

2.0-0

License

GPL (>= 3)

Maintainer

Last Published

January 7th, 2015

Functions in BEQI2 (2.0-0)

eqr

Ecological Quality Ratio (EQR)
readTWN

Read TWN Data
%inInterval%

Test if a Value is in an Interval
stripSpaces

Remove Redundant Spaces
beqi2

Perform BEQI-2 Analysis
abundance

Abundance
entropy

Shannon's Entropy
harmonize

Harmonize Case
readITI

Read Infaunal Trophic Index File
pool

Pooling
rename

Renaming Taxon Names
readERF

Read Ecotopes References File
readFIBI

Read Freshwater Inflow Biotic Index File
BEQI2-pkg

Marine Benthic Ecosystem Quality Index
readSettings

Read BEQI Settings File
isAzoic

Test for Azoic Samples
speciesRichness

Species Richness
readAMBI

Read AMBI Sensitivity Data
BEQI2dir

Create BEQI-2 Directory Structure
margalef

Margalef Index of Diversity
genusToSpecies

Genus to Species Conversion
readBEQI

Read BEQI input files