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modEvA (version 2.0)

Model Evaluation and Analysis

Description

Analyses species distribution models and evaluates their performance. It includes functions for performing variation partitioning, calculating several measures of model discrimination and calibration, optimizing prediction thresholds based on a number of criteria, performing multivariate environmental similarity surface (MESS) analysis, and displaying various analytical plots.

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Version

Install

install.packages('modEvA')

Monthly Downloads

1,808

Version

2.0

License

GPL-3

Maintainer

A. Barbosa

Last Published

January 21st, 2020

Functions in modEvA (2.0)

multModEv

Multiple model evaluation
optiPair

Optimize the classification threshold for a pair of related model evaluation measures.
optiThresh

Optimize threshold for model evaluation.
standard01

Standardize to 0-1 (or vice-versa)
MESS

Multivariate Environmental Similarity Surfaces based on a data frame
threshMeasures

Threshold-based measures of model evaluation
plotGLM

Plot a generalized linear model
getBins

Get bins of continuous values.
predDensity

Plot the density of predicted values for presences and absences.
prevalence

Prevalence
varPart

Variation partitioning
getModEqn

Get model equation
modEvAmethods

Methods implemented in modEvA functions
modEvA-package

Model Evaluation and Analysis
rotif.mods

Rotifer distribution models
range01

Shrink or stretch a vector to make it range between 0 and 1
HLfit

Hosmer-Lemeshow goodness of fit
arrangePlots

Arrange plots
RsqGLM

R-squared measures for GLMs
evaluate

Evaluate a GLM based on the elements of a confusion matrix.
evenness

Evenness in a binary vector.
AUC

Area Under the Curve
Dsquared

Proportion of deviance explained by a GLM
MillerCalib

Miller's calibration satistics for logistic regression models
OA

Overlap Analysis