mask.L: Mask L likelihood

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

Description

mask.L masks L likelihood based on a certain extent from previous days filter prediction

Usage

mask.L(pred.t, L.t, lon, lat, par0, bound.thr = 0.05, minBounds = NULL)

Arguments

pred.t	is prediction at t-1 that is used for 1) the size of the mask and 2) multiplying with L for resulting post likelihood surface
L.t	is data based likelihood layer, L[t], for the time step of interest (usually a day)
lon	vector of longitude values corresponding to dims of the previous 2 layers
lat	vector of latitude values corresponding to dims of the previous 2 layers
par0	is vector of movement parameter values, likely output from calc.param.
bound.thr	is numeric indicating the percent threshold that is added and subtracted from the bounding box of the filter output from the previous day before masking. Default is .05 (5 percent).
minBounds	is size (in degrees) of the minimum bounding box around the previous days filter prediction that L data within that box will be included. Outside this box (centered on t-1 filter prediction), L will be masked out.

Details

L likelihood is masked based on a percent size (in addition to) the extent of the previous days prediction kernel. If that kernel is smaller than the migratory kernel being used, the migratory kernel size is defaulted to. User can also specify a minimum bound size.

Value

post matrix as a product of the input prediction and L values

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