make.L: Combine individual source likelihoods

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

Description

make.L combines individual likelihoods from various data sources (e.g. SST, OHC) to make overall combined likelihoods for each time point

Usage

make.L(L1, L2 = NULL, L3 = NULL, known.locs = NULL, L.mle.res,
  dateVec = NULL, locs.grid = NULL, iniloc = NULL, bathy = NULL,
  pdt = NULL)

Arguments

L1	a likelihood array
L2	a likelihood array
L3	a likelihood array
known.locs	is data frame of known locations containing named columns of date, lon, lat. Default is NULL.
L.mle.res	is a coarse resolution array of dim(L1) that speeds up the parameter estimation step later on
dateVec	is vector of dates from tag to pop-up date by day. Only required if known.locs is not NULL.
locs.grid	is output grid from setup.locs.grid. Only required if known.locs is not NULL.
iniloc	is matrix of tag and pop locations. Default is NULL because this should be taken care of elsewhere.
bathy	is bathymetry raster (likely from ETOPO1) as acquired by get.bath.data
pdt	is data frame output from read.wc(type='pdt')

Value

a list containing: L, the overall likelihood array and L.mle, a more coarse version of L used later for parameter estimation

Note

This function currently only supports the use of 3 input likelihood data sources. This will be expanded in the future based on user needs.

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