Ecological Archives E096-229-A3

Christoffer Moesgaard Albertsen, Kim Whoriskey, David Yurkowski, Anders Nielsen, and Joanna Mills Flemming. 2015. Fast fitting of non-Gaussian state-space models to animal movement data via Template Model Builder. Ecology 96:25982604. http://dx.doi.org/10.1890/14-2101.1

Appendix C. Parameter estimates obtained using TMB for models fitted to the ringed seal data.

Table C1 shows the number of observations in each location class for the two data sets. Table C2-C5 shows the parameter estimates for the TMB-g and TMB-t fits for the subadult and adult ringed seal data. For both data sets, the measurement errors are estimated to be close to a Gaussian distribution for location class 3 and 2. For the adult ringed seal data, the Z class is also estimated to be close to a normal distribution.

Table C1. Number of observations per location class for the subadult and adult ringed seal data.

3 2 1 0 A B Z
Subadult 92 209 392 263 854 1773 3
Adult 181 204 147 202 542 1412 10

 

Table C2. Estimates from the TMB-g model for the subadult data.

Estimate Std. Error
log(β) -0.6272 0.0915
log(σ1) -4.2909 0.0759
log(σ2) -3.5709 0.0733
τ1,3 0.0030 0.0007
τ2,3 0.0062 0.0017
τ1,2 0.0026 0.0004
τ2,2 0.0069 0.0009
τ1,1 0.0059 0.0004
τ2,1 0.0164 0.0010
τ1,0 0.0234 0.0013
τ2,0 0.0521 0.0028
τ1,A 0.0254 0.0008
τ2,A 0.0714 0.0020
τ1,B 0.0751 0.0013
τ2,B 0.1846 0.0032
τ1,Z 0.4036 0.1284
τ2,Z 0.9286 0.2567

 

Table C3. Estimates from the TMB-t model for the subadult data.

Estimate Std. Error
log(β) -0.8423 0.0617
log(σ1) -4.4811 0.0459
log(σ2) -3.7488 0.0482
τ1,3 0.0031 0.0007
τ2,3 0.0053 0.0012
τ1,2 0.0026 0.0003
τ2,2 0.0071 0.0008
τ1,1 0.0050 0.0004
τ2,1 0.0142 0.0009
τ1,0 0.0102 0.0007
τ2,0 0.0275 0.0018
τ1,A 0.0087 0.0004
τ2,A 0.0247 0.0011
τ1,B 0.0147 0.0004
τ2,B 0.0365 0.0010
τ1,Z 0.0782 0.0506
τ2,Z 0.2403 0.1289
d3 93.4358 88.5858
d2 121.1430 123.7133
d1 7.6560 1.5786
d0 3.2276 0.1674
dA 3.0899 0.0420
dB 3.0324 0.0137
dZ 3.9284 0.9744

 

Table C4. Estimates from the TMB-g model for the adult data.

0.0002
Estimate Std. Error
log(β) -1.6428 0.1131
log(σ1) -5.5498 0.0856
log(σ2) -5.1676 0.0927
τ1,3 0.0010
τ2,3 0.0034 0.0006
τ1,2 0.0029 0.0005
τ2,2 0.0076 0.0008
τ1,1 0.0099 0.0013
τ2,1 0.0324 0.0028
τ1,0 0.0327 0.0019
τ2,0 0.0752 0.0042
τ1,A 0.0441 0.0016
τ2,A 0.0899 0.0031
τ1,B 0.1231 0.0024
τ2,B 0.2489 0.0048
τ1,Z 0.1594 0.0337
τ2,Z 0.6493 0.1258

 

Table C5. Estimates from the TMB-t model for the adult data.

Estimate Std. Error
log(β) -1.6572 0.0953
log(σ1) -5.5224 0.0683
log(σ2) -5.1755 0.0753
τ1,3 0.0010 0.0002
τ2,3 0.0033 0.0005
τ1,2 0.0028 0.0004
τ2,2 0.0066 0.0007
τ1,1 0.0068 0.0008
τ2,1 0.0168 0.0018
τ1,0 0.0190 0.0015
τ2,0 0.0368 0.0029
τ1,A 0.0167 0.0009
τ2,A 0.0349 0.0018
τ1,B 0.0281 0.0009
τ2,B 0.0615 0.0019
τ1,Z 0.1785 0.0350
τ2,Z 0.6972 0.1191
d3 477.1810 663.0708
d2 12.5629 3.2426
d1 4.1049 0.7763
d0 3.2015 0.1937
dA 3.0534 0.0394
dB 3.0201 0.0112
dZ 32.4697

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