tests/testthat/_snaps/dfuncVal_Halfnorm.md
In tmcd82070/Rdistance: Density and Abundance from Distance-Sampling Surveys
halfnorm-MinimumInputs
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~
groupsize(groupsize), likelihood = lhood)
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.959313 0.03767961 105.0784 0
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 207 [m]
Effective strip width (ESW): 65.69518 [m]
Probability of detection: 0.317368
Scaling: g(0 [m]) = 1
Log likelihood: -1667.639
AICc: 3337.289
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 7.906888e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 324577.7
halfnorm-NoCovar
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, w.lo = w.lo, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = 0, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.9095 0.04038592 96.80353 0
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 150 [m]
Effective strip width (ESW): 62.34318 [m]
Probability of detection: 0.4156212
Scaling: g(0 [m]) = 1
Log likelihood: -1630.716
AICc: 3263.443
Surveyed Units: 36000 [m]
Individuals seen: 371 in 353 groups
Average group size: 1.050992
Group size range: 1 to 3
Density in sampled area: 8.265183e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 339285.8
halfnorm-ContinuousCovar
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ bare +
groupsize(groupsize), likelihood = lhood, w.lo = w.lo, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = 0, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.346186334 0.155241549 21.554709 4.782716e-103
bare 0.009715902 0.002720187 3.571777 3.545668e-04
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 150 [m]
Average effective strip width (ESW): 61.9967 [m] (range 47.95041 [m] to 76.97784 [m])
Average probability of detection: 0.4133113 (range 0.3196694 to 0.5131856)
Scaling: g(0 [m]) = 1
Log likelihood: -1624.351
AICc: 3252.736
Surveyed Units: 36000 [m]
Individuals seen: 371 in 353 groups
Average group size: 1.050992
Group size range: 1 to 3
Density in sampled area: 8.470694e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 347722
halfnorm-FactorCovar
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ observer +
groupsize(groupsize), likelihood = lhood, w.lo = w.lo, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = 0, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.92800543 0.0879347 44.6695705 0.00000000
observerobs2 0.17073245 0.1460467 1.1690265 0.24239295
observerobs3 -0.01647247 0.1192377 -0.1381481 0.89012334
observerobs4 -0.26739637 0.1289792 -2.0731738 0.03815611
observerobs5 -0.02839298 0.1234549 -0.2299866 0.81810217
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 150 [m]
Average effective strip width (ESW): 62.19478 [m] (range 48.72956 [m] to 74.5625 [m])
Average probability of detection: 0.4146318 (range 0.3248637 to 0.4970833)
Scaling: g(0 [m]) = 1
Log likelihood: -1626.142
AICc: 3262.456
Surveyed Units: 36000 [m]
Individuals seen: 371 in 353 groups
Average group size: 1.050992
Group size range: 1 to 3
Density in sampled area: 8.387749e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 344317.1
halfnorm-NoCovarWloWhi
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, w.lo = w.20, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = w.20, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.783568 0.05013421 75.46878 0
Convergence: Success
Function: HALFNORM
Strip: 20 [m] to 150 [m]
Effective strip width (ESW): 54.94 [m]
Probability of detection: 0.4226154
Scaling: g(20 [m]) = 1
Log likelihood: -1046.467
AICc: 2094.952
Surveyed Units: 36000 [m]
Individuals seen: 241 in 233 groups
Average group size: 1.034335
Group size range: 1 to 2
Density in sampled area: 6.092505e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 250097.3
halfnorm-NoCovarWlo
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, w.lo = w.20, expansions =
0, series = "cosine", x.scl = w.20, g.x.scl = 1, outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.864711 0.04630146 83.46845 0
Convergence: Success
Function: HALFNORM
Strip: 20 [m] to 207 [m]
Effective strip width (ESW): 59.76463 [m]
Probability of detection: 0.3195969
Scaling: g(20 [m]) = 1
Log likelihood: -1083.168
AICc: 2168.354
Surveyed Units: 36000 [m]
Individuals seen: 244 in 236 groups
Average group size: 1.033898
Group size range: 1 to 2
Density in sampled area: 5.670392e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 232769.6
halfnorm-NoCovarsFt
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, outputUnits = "ft")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 5.147412 0.0376796 136.61 0
Convergence: Success
Function: HALFNORM
Strip: 0 [ft] to 679.1339 [ft]
Effective strip width (ESW): 215.5353 [ft]
Probability of detection: 0.317368
Scaling: g(0 [ft]) = 1
Log likelihood: -2090.602
AICc: 4183.216
Surveyed Units: 118110.2 [ft]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 7.345741e-06 [1/ft^2]
Abundance in 44185852261 [ft^2] study area: 324577.8
halfnorm-NoCovarExpansions
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, expansions = 2, outputUnits
= "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 4.079325514 0.05714809 71.38166236 0.00000000
a1 0.345899344 0.13834328 2.50029742 0.01240891
a2 -0.007169272 0.10471435 -0.06846504 0.94541545
Convergence: Success
Function: HALFNORM with 2 expansion(s) of COSINE series
Strip: 0 [m] to 207 [m]
Effective strip width (ESW): 59.11922 [m]
Probability of detection: 0.2856001
Scaling: g(0 [m]) = 1
Log likelihood: -1663.037
AICc: 3332.143
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 8.786388e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 360681.2
halfnorm-ContCovarExpansions
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ bare +
groupsize(groupsize), likelihood = lhood, expansions = 2, outputUnits
= "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.379022069 0.170031939 19.87286675 6.989499e-88
bare 0.011262251 0.002783443 4.04615847 5.206499e-05
a1 0.253160857 0.152435242 1.66077643 9.675836e-02
a2 -0.002002772 0.110140598 -0.01818377 9.854922e-01
Convergence: Success
Function: HALFNORM with 2 expansion(s) of COSINE series
Strip: 0 [m] to 207 [m]
Average effective strip width (ESW): 59.63415 [m] (range 46.28205 [m] to 74.44282 [m])
Average probability of detection: 0.2880877 (range 0.2235848 to 0.3596271)
Scaling: g(0 [m]) = 1
Log likelihood: -1655.091
AICc: 3318.296
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 8.876391e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 364375.9
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ bare +
groupsize(groupsize), likelihood = lhood, expansions = 2, outputUnits
= "m", x.scl = xScl, g.x.scl = gXscl)
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.379022805 0.170032017 19.87286202 6.990157e-88
bare 0.011262242 0.002783446 4.04615060 5.206674e-05
a1 0.253160841 0.152437890 1.66074748 9.676417e-02
a2 -0.002002868 0.110144844 -0.01818395 9.854921e-01
Convergence: Success
Function: HALFNORM with 2 expansion(s) of COSINE series
Strip: 0 [m] to 207 [m]
Average effective strip width (ESW): 44.72562 [m] (range 34.71155 [m] to 55.83212 [m])
Average probability of detection: 0.2160658 (range 0.1676887 to 0.2697204)
Scaling: g(0 [m]) = 0.75
Log likelihood: -1655.091
AICc: 3318.296
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 0.0001183518 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 485834.3
halfnorm-Bootstraps
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~
groupsize(groupsize), likelihood = lhood)
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.959313 0.03767961 105.0784 0
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 207 [m]
Effective strip width (ESW): 65.69518 [m]
Probability of detection: 0.317368
Scaling: g(0 [m]) = 1
Log likelihood: -1667.639
AICc: 3337.289
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 7.906888e-05 [1/m^2]
95% CI: 6.31604e-05 [1/m^2] to 8.926331e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 324577.7
95% CI: 259273.4 to 366425.9
tmcd82070/Rdistance documentation built on April 13, 2025, 1:38 p.m.
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halfnorm-MinimumInputs
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~
groupsize(groupsize), likelihood = lhood)
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.959313 0.03767961 105.0784 0
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 207 [m]
Effective strip width (ESW): 65.69518 [m]
Probability of detection: 0.317368
Scaling: g(0 [m]) = 1
Log likelihood: -1667.639
AICc: 3337.289
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 7.906888e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 324577.7
halfnorm-NoCovar
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, w.lo = w.lo, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = 0, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.9095 0.04038592 96.80353 0
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 150 [m]
Effective strip width (ESW): 62.34318 [m]
Probability of detection: 0.4156212
Scaling: g(0 [m]) = 1
Log likelihood: -1630.716
AICc: 3263.443
Surveyed Units: 36000 [m]
Individuals seen: 371 in 353 groups
Average group size: 1.050992
Group size range: 1 to 3
Density in sampled area: 8.265183e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 339285.8
halfnorm-ContinuousCovar
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ bare +
groupsize(groupsize), likelihood = lhood, w.lo = w.lo, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = 0, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.346186334 0.155241549 21.554709 4.782716e-103
bare 0.009715902 0.002720187 3.571777 3.545668e-04
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 150 [m]
Average effective strip width (ESW): 61.9967 [m] (range 47.95041 [m] to 76.97784 [m])
Average probability of detection: 0.4133113 (range 0.3196694 to 0.5131856)
Scaling: g(0 [m]) = 1
Log likelihood: -1624.351
AICc: 3252.736
Surveyed Units: 36000 [m]
Individuals seen: 371 in 353 groups
Average group size: 1.050992
Group size range: 1 to 3
Density in sampled area: 8.470694e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 347722
halfnorm-FactorCovar
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ observer +
groupsize(groupsize), likelihood = lhood, w.lo = w.lo, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = 0, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.92800543 0.0879347 44.6695705 0.00000000
observerobs2 0.17073245 0.1460467 1.1690265 0.24239295
observerobs3 -0.01647247 0.1192377 -0.1381481 0.89012334
observerobs4 -0.26739637 0.1289792 -2.0731738 0.03815611
observerobs5 -0.02839298 0.1234549 -0.2299866 0.81810217
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 150 [m]
Average effective strip width (ESW): 62.19478 [m] (range 48.72956 [m] to 74.5625 [m])
Average probability of detection: 0.4146318 (range 0.3248637 to 0.4970833)
Scaling: g(0 [m]) = 1
Log likelihood: -1626.142
AICc: 3262.456
Surveyed Units: 36000 [m]
Individuals seen: 371 in 353 groups
Average group size: 1.050992
Group size range: 1 to 3
Density in sampled area: 8.387749e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 344317.1
halfnorm-NoCovarWloWhi
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, w.lo = w.20, w.hi = w.hi,
expansions = 0, series = "cosine", x.scl = w.20, g.x.scl = 1,
outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.783568 0.05013421 75.46878 0
Convergence: Success
Function: HALFNORM
Strip: 20 [m] to 150 [m]
Effective strip width (ESW): 54.94 [m]
Probability of detection: 0.4226154
Scaling: g(20 [m]) = 1
Log likelihood: -1046.467
AICc: 2094.952
Surveyed Units: 36000 [m]
Individuals seen: 241 in 233 groups
Average group size: 1.034335
Group size range: 1 to 2
Density in sampled area: 6.092505e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 250097.3
halfnorm-NoCovarWlo
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, w.lo = w.20, expansions =
0, series = "cosine", x.scl = w.20, g.x.scl = 1, outputUnits = "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.864711 0.04630146 83.46845 0
Convergence: Success
Function: HALFNORM
Strip: 20 [m] to 207 [m]
Effective strip width (ESW): 59.76463 [m]
Probability of detection: 0.3195969
Scaling: g(20 [m]) = 1
Log likelihood: -1083.168
AICc: 2168.354
Surveyed Units: 36000 [m]
Individuals seen: 244 in 236 groups
Average group size: 1.033898
Group size range: 1 to 2
Density in sampled area: 5.670392e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 232769.6
halfnorm-NoCovarsFt
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, outputUnits = "ft")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 5.147412 0.0376796 136.61 0
Convergence: Success
Function: HALFNORM
Strip: 0 [ft] to 679.1339 [ft]
Effective strip width (ESW): 215.5353 [ft]
Probability of detection: 0.317368
Scaling: g(0 [ft]) = 1
Log likelihood: -2090.602
AICc: 4183.216
Surveyed Units: 118110.2 [ft]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 7.345741e-06 [1/ft^2]
Abundance in 44185852261 [ft^2] study area: 324577.8
halfnorm-NoCovarExpansions
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ 1 +
groupsize(groupsize), likelihood = lhood, expansions = 2, outputUnits
= "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 4.079325514 0.05714809 71.38166236 0.00000000
a1 0.345899344 0.13834328 2.50029742 0.01240891
a2 -0.007169272 0.10471435 -0.06846504 0.94541545
Convergence: Success
Function: HALFNORM with 2 expansion(s) of COSINE series
Strip: 0 [m] to 207 [m]
Effective strip width (ESW): 59.11922 [m]
Probability of detection: 0.2856001
Scaling: g(0 [m]) = 1
Log likelihood: -1663.037
AICc: 3332.143
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 8.786388e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 360681.2
halfnorm-ContCovarExpansions
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ bare +
groupsize(groupsize), likelihood = lhood, expansions = 2, outputUnits
= "m")
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.379022069 0.170031939 19.87286675 6.989499e-88
bare 0.011262251 0.002783443 4.04615847 5.206499e-05
a1 0.253160857 0.152435242 1.66077643 9.675836e-02
a2 -0.002002772 0.110140598 -0.01818377 9.854922e-01
Convergence: Success
Function: HALFNORM with 2 expansion(s) of COSINE series
Strip: 0 [m] to 207 [m]
Average effective strip width (ESW): 59.63415 [m] (range 46.28205 [m] to 74.44282 [m])
Average probability of detection: 0.2880877 (range 0.2235848 to 0.3596271)
Scaling: g(0 [m]) = 1
Log likelihood: -1655.091
AICc: 3318.296
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 8.876391e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 364375.9
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~ bare +
groupsize(groupsize), likelihood = lhood, expansions = 2, outputUnits
= "m", x.scl = xScl, g.x.scl = gXscl)
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.379022805 0.170032017 19.87286202 6.990157e-88
bare 0.011262242 0.002783446 4.04615060 5.206674e-05
a1 0.253160841 0.152437890 1.66074748 9.676417e-02
a2 -0.002002868 0.110144844 -0.01818395 9.854921e-01
Convergence: Success
Function: HALFNORM with 2 expansion(s) of COSINE series
Strip: 0 [m] to 207 [m]
Average effective strip width (ESW): 44.72562 [m] (range 34.71155 [m] to 55.83212 [m])
Average probability of detection: 0.2160658 (range 0.1676887 to 0.2697204)
Scaling: g(0 [m]) = 0.75
Log likelihood: -1655.091
AICc: 3318.296
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 0.0001183518 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 485834.3
halfnorm-Bootstraps
Code
summary(fit)
Output
Call: dfuncEstim(data = sparrowDf, formula = dist ~
groupsize(groupsize), likelihood = lhood)
Coefficients:
Estimate SE z p(>|z|)
(Intercept) 3.959313 0.03767961 105.0784 0
Convergence: Success
Function: HALFNORM
Strip: 0 [m] to 207 [m]
Effective strip width (ESW): 65.69518 [m]
Probability of detection: 0.317368
Scaling: g(0 [m]) = 1
Log likelihood: -1667.639
AICc: 3337.289
Surveyed Units: 36000 [m]
Individuals seen: 374 in 356 groups
Average group size: 1.050562
Group size range: 1 to 3
Density in sampled area: 7.906888e-05 [1/m^2]
95% CI: 6.31604e-05 [1/m^2] to 8.926331e-05 [1/m^2]
Abundance in 4.105e+09 [m^2] study area: 324577.7
95% CI: 259273.4 to 366425.9
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