Diagnostic.Plots: Create diagnostic plots

In wpeterman/ResistanceGA: Optimize resistance surfaces using genetic algorithms

Create diagnostic plots

Description

This function will generate mixed effect model diagnostic plots following optimization

Usage

Diagnostic.Plots(resistance.mat, genetic.dist, XLAB,YLAB, plot.dir, type, name, ID, ZZ)

Arguments

resistance.mat	Path to CIRCUITSCAPE "_resistances.out" file, or costDistance object created from running gdistance
genetic.dist	Vector of pairwise genetic distances (lower half of pairwise matrix). Can be input as CS.inputs$response
XLAB	Label for x-axis (Defaults to "Estimated resistance")
YLAB	Label for y-axis (Defaults to "Genetic distance")
plot.dir	Directory to output TIFF of diagnostic plots
type	Specify whether the optimized surface is "continuous" or "categorical"
name	The name to be attached to the output file. Must be specified when getting diagnostic plots for gdistance models
ID	The to_from ID list for the MLPE model. The function will automatically create this object, but it can be specified directly from the output of CS.prep or gdist.prep (Default = NULL)
ZZ	The sparse matrix object for the MLPE model. The function will automatically create this object, but it can be specified directly from the output of CS.prep or gdist.prep (Default = NULL)

Value

A multipanel panel .tif including histogram of residuals and qqplot of fitted mixed effects model

Author(s)

Bill Peterman <[e-mail]>

Examples

 
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wpeterman/ResistanceGA documentation built on Nov. 20, 2023, 11:50 p.m.