plotHMM: Plot track results of HMMoce

In HMMoce: Improved Analysis of Marine Animal Movement Data Using Hidden Markov Models

Description

plotHMM uses HMM output via calc.track to make simple plots of calculated track and behavior state

Usage

plotHMM(distr, track, dateVec, ptt, known = NULL, resid = FALSE,
  behav.pts = F, save.plot = FALSE)

Arguments

distr	is output array from hmm.smoother
track	is output dataframe from calc.track
dateVec	is vector of dates from tag to pop-up location by day.
ptt	is unique ID for individual tag dataset
known	is 3 column data frame containing date, lat, lon of known movement track. This is only useful for comparing HMMoce results to known track collected by SPOT or GPS, for example. Default is NULL.
resid	is logical indicating whether you want to include a residual plot. This is not yet functional.
behav.pts	is logical indicating whether to plot points in the resulting map colored by behav state.
save.plot	is logical indicating whether you want the plot written to disk using pdf.

Value

NULL. A plot is rendered on screen or written to disk.

References

Pedersen MW, Patterson TA, Thygesen UH, Madsen H (2011) Estimating animal behavior and residency from movement data. Oikos 120:1281-1290. doi: 10.1111/j.1600-0706.2011.19044.x

HMMoce documentation built on Nov. 17, 2017, 5:57 a.m.