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fuzzySim (version 3.7)

Fuzzy Similarity in Species Distributions

Description

Functions to calculate fuzzy versions of species' occurrence patterns based on presence-absence data (including inverse distance interpolation, trend surface analysis and prevalence-independent favourability GLM), and pair-wise fuzzy similarity (based on fuzzy versions of commonly used similarity indices) among those occurrence patterns. Includes also functions for model comparison (overlap and fuzzy similarity, loss or gain), and for data preparation, such as obtaining unique abbreviations of species names, converting species lists (long format) to presence-absence tables (wide format), transposing part of a data frame, assessing the false discovery rate, or analysing and dealing with multicollinearity among variables. Includes also sample datasets for providing practical examples.

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Version

Install

install.packages('fuzzySim')

Monthly Downloads

903

Version

3.7

License

GPL-3

Maintainer

A. Barbosa

Last Published

January 21st, 2022

Functions in fuzzySim (3.7)

Fav

Favourability (probability without the effect of sample prevalence)
favClass

Classify favourability into 3 categories (low, intermediate, high)
FDR

False Discovery Rate
distPres

(Inverse) distance to the nearest presence
multTSA

Trend Surface Analysis for multiple species
fuzzyRangeChange

Range change based on continuous (fuzzy) values
fuzzySim-package

Fuzzy Similarity in Species Distributions
modelTrim

Trim off non-significant variables from a model
multicol

Analyse multicollinearity in a dataset, including VIF
fuzzyOverlay

Row-wise overlay operations based on fuzzy logic
fuzSim

Fuzzy similarity
multGLM

GLMs with variable selection for multiple species
simMat

Pair-wise (fuzzy) similarity matrix
rotif.env

Rotifers and environmental variables on TDWG level 4 regions of the world
multConvert

Multiple conversion
percentTestData

Percent test data
rangemapSim

Pairwise similarity between rangemaps
rotifers

Rotifer species on TDWG level 4 regions of the world
modOverlap

Overall overlap between model predictions
integerCols

Classify integer columns
triMatInd

Triangular matrix indices
bioThreat

Biotic threat of a stronger over a weaker species based on their favourability values
gridRecords

Grid (or thin) point occurrence records to the resolution of a raster map
spCodes

Obtain unique abbreviations of species names
corSelect

Select among correlated variables based on a given criterion
getPreds

Get model predictions
pairwiseRangemaps

Pairwise intersection (and union) of range maps
splist2presabs

Convert a species list to a presence-absence table
stepByStep

Analyse and compare stepwise model predictions
sharedFav

Shared favourability for two competing species
simFromSetOps

Calculate similarity from set operations
transpose

Transpose (part of) a matrix or dataframe
timer

Timer