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README.md

lsmnsd

lsmnsd is an R package that analyzes animal movement using latent-state model and net squared displacement.

This is the development area for the package lsmnsd, which provides a series of functions to analyze and classify animal movement strategies based on analysis of Net Squared Displacement (NSD) and latent-state model.

References: Bastille-Rousseau, G., Potts, J., Yackulic, C., Frair, J., Ellington, E.H., Blake, S. (2016) Flexible characterization of animal movement pattern using net squared displacement and a latent state model. Movement Ecology.

For questions: gbr |at| colostate.edu

Installation of the development version

You need to use the package devtoolsfrom Hadley Wickham.

library(devtools)
install_github("BastilleRousseau/lsmnsd")

You also need a version of JAGS and the package R2jags installed before using the package.

Getting started

The package main functions are clustNSD, simple.clust, and classify. The package comes with movement data from two giant tortoises : Christian and Zelfa. For a list of documented functions see the Reference manual.

Alternatively, here is a quick example to get you going:

library(lsmnsd)
data(Christian) 
nsd1<-NSD_fct(Christian$x, Christian$y)
Christian_out<-clustNSD(cbind(range01(nsd1), Christian$Time), n.iter=10000, WAIC=F, simplify=F)
summary(simple.clust(Christian_out))
Christian_class<-classify(Christian_out)
summary(Christian_class)

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