From 6211f3ef4995657798686d8d4ab43ed9406e8a08 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Tue, 12 May 2020 16:34:00 +0200 Subject: Update vignettes and docs --- docs/reference/test_data_from_UBA_2014.html | 109 ++++++++++++++-------------- 1 file changed, 53 insertions(+), 56 deletions(-) (limited to 'docs/reference/test_data_from_UBA_2014.html') diff --git a/docs/reference/test_data_from_UBA_2014.html b/docs/reference/test_data_from_UBA_2014.html index 0040c331..237149a5 100644 --- a/docs/reference/test_data_from_UBA_2014.html +++ b/docs/reference/test_data_from_UBA_2014.html @@ -10,23 +10,27 @@ - + - + - + + + + + - - + + - + - - + + @@ -38,7 +42,6 @@ - @@ -56,7 +59,7 @@ - +
@@ -114,7 +117,12 @@
@@ -144,7 +152,7 @@

Format

A list containing three datasets as an R6 class defined by mkinds. - Each dataset has, among others, the following components

+ Each dataset has, among others, the following components

title

The name of the dataset, e.g. UBA_2014_WS_river

data

A data frame with the data in the form expected by mkinfit

@@ -165,23 +173,16 @@ # model). m_ws <- mkinmod(parent_w = mkinsub("SFO", "parent_s"), parent_s = mkinsub("SFO", "parent_w"))
#> Successfully compiled differential equation model from auto-generated C code.
f_river <- mkinfit(m_ws, test_data_from_UBA_2014[[1]]$data, quiet = TRUE)
#> Warning: Observations with value of zero were removed from the data
plot_sep(f_river)
- summary(f_river)$bpar
#> Estimate se_notrans t value Pr(>t) -#> parent_w_0 9.598567e+01 2.12351789 4.520126e+01 9.476190e-18 -#> k_parent_w_sink 3.603743e-01 0.03149282 1.144306e+01 4.126593e-09 -#> k_parent_w_parent_s 6.031371e-02 0.01603582 3.761186e+00 9.436275e-04 -#> k_parent_s_sink 5.108964e-11 0.09482736 5.387647e-10 5.000000e-01 -#> k_parent_s_parent_w 7.419672e-02 0.10737376 6.910135e-01 2.500560e-01 -#> sigma 2.982879e+00 0.50545649 5.901356e+00 1.454535e-05 -#> Lower Upper -#> parent_w_0 91.48420503 100.4871438 -#> k_parent_w_sink 0.30668904 0.4234571 -#> k_parent_w_parent_s 0.03423904 0.1062455 -#> k_parent_s_sink 0.00000000 Inf -#> k_parent_s_parent_w 0.02289956 0.2404043 -#> sigma 2.00184022 3.9639169
mkinerrmin(f_river)
#> err.min n.optim df -#> All data 0.09246946 5 6 -#> parent_w 0.06377096 3 3 -#> parent_s 0.20882325 2 3
+ summary(f_river)$bpar
#> Warning: Could not calculate correlation; no covariance matrix
#> Estimate se_notrans t value Pr(>t) Lower Upper +#> parent_w_0 95.91998116 NA NA NA NA NA +#> k_parent_w 0.41145375 NA NA NA NA NA +#> k_parent_s 0.04663944 NA NA NA NA NA +#> f_parent_w_to_parent_s 0.12467894 NA NA NA NA NA +#> f_parent_s_to_parent_w 0.50000000 NA NA NA NA NA +#> sigma 3.13612618 NA NA NA NA NA
mkinerrmin(f_river)
#> err.min n.optim df +#> All data 0.1090929 5 6 +#> parent_w 0.0817436 3 3 +#> parent_s 0.1619965 2 3
# This is the evaluation used for the validation of software packages # in the expertise from 2014 m_soil <- mkinmod(parent = mkinsub("SFO", c("M1", "M2")), @@ -190,42 +191,38 @@ M3 = mkinsub("SFO"), use_of_ff = "max")
#> Successfully compiled differential equation model from auto-generated C code.
f_soil <- mkinfit(m_soil, test_data_from_UBA_2014[[3]]$data, quiet = TRUE)
#> Warning: Observations with value of zero were removed from the data
plot_sep(f_soil, lpos = c("topright", "topright", "topright", "bottomright"))
summary(f_soil)$bpar
#> Estimate se_notrans t value Pr(>t) Lower -#> parent_0 76.55425584 0.859186619 89.1008474 1.113866e-26 74.755959756 -#> k_parent 0.12081956 0.004601922 26.2541544 1.077373e-16 0.111561582 -#> k_M1 0.84258649 0.806231419 1.0450926 1.545475e-01 0.113839803 -#> k_M2 0.04210878 0.017083049 2.4649453 1.170195e-02 0.018013807 -#> k_M3 0.01122919 0.007245890 1.5497322 6.885127e-02 0.002909463 -#> f_parent_to_M1 0.32240199 0.240803555 1.3388589 9.820820e-02 NA -#> f_parent_to_M2 0.16099854 0.033691991 4.7785403 6.531224e-05 NA -#> f_M1_to_M3 0.27921501 0.269443514 1.0362655 1.565440e-01 0.022992937 -#> f_M2_to_M3 0.55641331 0.595125445 0.9349513 1.807725e-01 0.008003317 +#> parent_0 76.55425585 0.859186419 89.1008682 1.113862e-26 74.755958727 +#> k_parent 0.12081956 0.004601919 26.2541704 1.077361e-16 0.111561576 +#> k_M1 0.84258631 0.806165101 1.0451783 1.545282e-01 0.113778787 +#> k_M2 0.04210878 0.017083048 2.4649453 1.170195e-02 0.018013823 +#> k_M3 0.01122919 0.007245869 1.5497365 6.885076e-02 0.002909418 +#> f_parent_to_M1 0.32240194 0.240785506 1.3389591 9.819219e-02 NA +#> f_parent_to_M2 0.16099854 0.033691990 4.7785405 6.531222e-05 NA +#> f_M1_to_M3 0.27921506 0.269425556 1.0363347 1.565282e-01 0.022977927 +#> f_M2_to_M3 0.55641328 0.595121733 0.9349571 1.807710e-01 0.008002321 #> sigma 1.14005399 0.149696423 7.6157731 1.727024e-07 0.826735778 #> Upper -#> parent_0 78.35255192 +#> parent_0 78.35255298 #> k_parent 0.13084582 -#> k_M1 6.23641265 -#> k_M2 0.09843279 -#> k_M3 0.04333950 +#> k_M1 6.23975442 +#> k_M2 0.09843270 +#> k_M3 0.04334016 #> f_parent_to_M1 NA #> f_parent_to_M2 NA -#> f_M1_to_M3 0.86443083 -#> f_M2_to_M3 0.99489847 +#> f_M1_to_M3 0.86450919 +#> f_M2_to_M3 0.99489910 #> sigma 1.45337221
mkinerrmin(f_soil)
#> err.min n.optim df #> All data 0.09649963 9 20 #> parent 0.04721283 2 6 -#> M1 0.26551209 2 5 +#> M1 0.26551208 2 5 #> M2 0.20327575 2 5 -#> M3 0.05196549 3 4
# } +#> M3 0.05196550 3 4
# }
- @@ -236,7 +233,7 @@
-

Site built with pkgdown 1.4.1.

+

Site built with pkgdown 1.5.1.

-- cgit v1.2.1