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IsoriX (version 0.9.2)

Isoscape Computation and Inference of Spatial Origins using Mixed Models

Description

Building isoscapes using mixed models and inferring the geographic origin of samples based on their isotopic ratios. This package is essentially a simplified interface to several other packages which implements a new statistical framework based on mixed models. It uses 'spaMM' for fitting and predicting isoscapes, and assigning an organism's origin depending on its isotopic ratio. 'IsoriX' also relies heavily on the package 'rasterVis' for plotting the maps produced with 'terra' using 'lattice'.

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Version

Install

install.packages('IsoriX')

Monthly Downloads

752

Version

0.9.2

License

GPL (>= 2)

Issues

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Maintainer

Alexandre Courtiol

Last Published

November 14th, 2023

Functions in IsoriX (0.9.2)

options

Setting and displaying the options of the package
isofind

Infer spatial origins
isofit

Fit the isoscape models
getelev

Download an elevation raster from internet
getprecip

Download rasters of monthly precipitation from internet
plots

Plotting functions for IsoriX
prepcipitate

Prepare the raster brick containing the precipitation data
prepraster

Prepare the structural raster
isomultifit

Fit isoscape models per strata (typically time interval such as months)
prepsources

Filter and aggregate the raw source dataset
downloadfile

Download files and check their binary integrity
reexports

Objects exported from other packages
create_aliens

Simulate datasets for calibrations or assignments
isomultiscape

Predicts the average spatial distribution of isotopic values over months, years...
isopalette2

Colour palettes for plotting
serialize

Save and read objects produced by IsoriX using RDS files
isoscape

Predicts the spatial distribution of source isotopic values
CountryBorders

Borders of world CountryBorders
CALIBFIT-class

Class CALIBFIT
ISOFIND-class

Class ISOFIND
IsoriX-defunct

Defunct and deprecated functions
ISOSCAPE-class

Class ISOSCAPE
AssignDataBat2

Assignment dataset for bat species
GNIPDataEUagg

Hydrogen delta values in precipitation water (aggregated per location)
CalibDataBat2

Calibration dataset for bat species
OceanMask

Mask of world oceans
CalibDataAlien

Simulated calibration dataset
CalibDataBat

Calibration dataset for bat species
AssignDataBat

Assignment dataset for bat species
GNIPDataDE

Hydrogen delta values in precipitation water, Germany
ElevRasterDE

The raster of elevation for Germany
AssignDataAlien

Simulated assignment dataset
IsoriX-package

Isoscape Computation and Inference of Spatial Origins using Mixed Models
PrecipBrickDE

The precipitation monthly amounts for Germany
calibfit

Fit the calibration model (or load parameters from calibration done outside IsoriX)