From af2e1540cdad2fd00bb6216a38a754ff748629ad Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Fri, 25 Oct 2019 02:10:08 +0200 Subject: Static documentation rebuilt by pkgdown --- docs/reference/summary.mkinfit.html | 124 +++++++++++++++++++----------------- 1 file changed, 65 insertions(+), 59 deletions(-) (limited to 'docs/reference/summary.mkinfit.html') diff --git a/docs/reference/summary.mkinfit.html b/docs/reference/summary.mkinfit.html index 73410181..65bc6326 100644 --- a/docs/reference/summary.mkinfit.html +++ b/docs/reference/summary.mkinfit.html @@ -8,11 +8,13 @@ Summary method for class "mkinfit" — summary.mkinfit • mkin + + @@ -32,16 +34,18 @@ - - + + + @@ -112,7 +116,6 @@ News - @@ -134,19 +137,21 @@
- -

Lists model equations, initial parameter values, optimised parameters with some - uncertainty statistics, the chi2 error levels calculated according to FOCUS - guidance (2006) as defined therein, formation fractions, DT50 values and - optionally the data, consisting of observed, predicted and residual values.

- +

Lists model equations, initial parameter values, optimised parameters with +some uncertainty statistics, the chi2 error levels calculated according to +FOCUS guidance (2006) as defined therein, formation fractions, DT50 values +and optionally the data, consisting of observed, predicted and residual +values.

# S3 method for mkinfit
-summary(object, data = TRUE, distimes = TRUE, alpha = 0.05, ...)
+summary(object, data = TRUE, distimes = TRUE,
+  alpha = 0.05, ...)
+
 # S3 method for summary.mkinfit
-print(x, digits = max(3, getOption("digits") - 3), ...)
- +print(x, digits = max(3, getOption("digits") - + 3), ...) +

Arguments

@@ -154,92 +159,95 @@ - - - - - + - + - - - - - + + + + + + + + +
object

an object of class mkinfit.
x

an object of class summary.mkinfit.

data

logical, indicating whether the data should be included in the summary.

logical, indicating whether the data should be included in the +summary.
distimes

logical, indicating whether DT50 and DT90 values should be included.

logical, indicating whether DT50 and DT90 values should be +included.
alpha

error level for confidence interval estimation from t distribution

digits

Number of digits to use for printing

error level for confidence interval estimation from t +distribution
...

optional arguments passed to methods like print.
x

an object of class summary.mkinfit.

digits

Number of digits to use for printing

- +

Value

The summary function returns a list with components, among others

version, Rversion

The mkin and R versions used

-
date.fit, date.summary

The dates where the fit and the summary were produced

+
date.fit, date.summary

The dates where the fit and the summary were + produced

+
diffs

The differential equations used in the model

use_of_ff

Was maximum or minimum use made of formation fractions

-
residuals, residualVariance, sigma, modVariance, df

As in summary.modFit

-
cov.unscaled, cov.scaled, info, niter, stopmess, par

As in summary.modFit

-
bpar

Optimised and backtransformed parameters

-
diffs

The differential equations used in the model

-
data

The data (see Description above).

-
start

The starting values and bounds, if applicable, for optimised parameters.

-
fixed

The values of fixed parameters.

-
errmin

The chi2 error levels for each observed variable.

-
bparms.ode

All backtransformed ODE parameters, for use as starting parameters for - related models.

-
errparms

Error model parameters.

-
ff

The estimated formation fractions derived from the fitted model.

-
distimes

The DT50 and DT90 values for each observed variable.

+
bpar

Optimised and backtransformed + parameters

+
data

The data (see Description above).

+
start

The starting values and bounds, if applicable, for optimised + parameters.

+
fixed

The values of fixed parameters.

+
errmin

The chi2 error levels for + each observed variable.

+
bparms.ode

All backtransformed ODE + parameters, for use as starting parameters for related models.

+
errparms

Error model parameters.

+
ff

The estimated formation fractions derived from the fitted + model.

+
distimes

The DT50 and DT90 values for each observed variable.

SFORB

If applicable, eigenvalues of SFORB components of the model.

The print method is called for its side effect, i.e. printing the summary. -

References

-

FOCUS (2006) “Guidance Document on Estimating Persistence and - Degradation Kinetics from Environmental Fate Studies on Pesticides in EU - Registration” Report of the FOCUS Work Group on Degradation Kinetics, +

FOCUS (2006) “Guidance Document on Estimating Persistence + and Degradation Kinetics from Environmental Fate Studies on Pesticides in + EU Registration” Report of the FOCUS Work Group on Degradation Kinetics, EC Document Reference Sanco/10058/2005 version 2.0, 434 pp, http://esdac.jrc.ec.europa.eu/projects/degradation-kinetics

-

Examples

- 
  summary(mkinfit(mkinmod(parent = mkinsub("SFO")), FOCUS_2006_A, quiet = TRUE))
#> mkin version used for fitting:    0.9.49.6 
+    

+  summary(mkinfit(mkinmod(parent = mkinsub("SFO")), FOCUS_2006_A, quiet = TRUE))
#> mkin version used for fitting:    0.9.49.6 
 #> R version used for fitting:       3.6.1 
-#> Date of fit:     Thu Sep 19 09:52:40 2019 
-#> Date of summary: Thu Sep 19 09:52:40 2019 
+#> Date of fit:     Fri Oct 25 02:09:45 2019 
+#> Date of summary: Fri Oct 25 02:09:45 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent_sink * parent
 #> 
 #> Model predictions using solution type analytical 
 #> 
-#> Fitted using 131 model solutions performed in 0.27 s
+#> Fitted using 131 model solutions performed in 0.274 s
 #> 
 #> Error model: Constant variance 
 #> 
 #> Error model algorithm: OLS 
 #> 
 #> Starting values for parameters to be optimised:
-#>                    value   type
-#> parent_0      101.240000  state
-#> k_parent_sink   0.100000 deparm
-#> sigma           5.265546  error
+#>                value   type
+#> parent_0      101.24  state
+#> k_parent_sink   0.10 deparm
 #> 
 #> Starting values for the transformed parameters actually optimised:
 #>                        value lower upper
 #> parent_0          101.240000  -Inf   Inf
 #> log_k_parent_sink  -2.302585  -Inf   Inf
-#> sigma               5.265546     0   Inf
 #> 
 #> Fixed parameter values:
 #> None
@@ -287,17 +295,15 @@
 #>    30   parent    29.71    35.738  -6.0283
 #>    62   parent     5.98    10.862  -4.8818
 #>    90   parent     1.54     3.831  -2.2911
-#>   118   parent     0.39     1.351  -0.9613

+#>   118   parent     0.39     1.351  -0.9613

+