From deca771bee44019b96e5562215ea45f5f902a339 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Mon, 21 Nov 2016 16:26:01 +0100 Subject: Rebuild some more topics with fix for dots argument --- docs/reference/mkinfit.html | 48 ++++++++++++++++++++++----------------------- 1 file changed, 24 insertions(+), 24 deletions(-) (limited to 'docs/reference/mkinfit.html') diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index 2f32348e..a992db8e 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -336,7 +336,7 @@
Should a trace of the parameter values be listed?
-
…
+
…
Further arguments that will be passed to modFit.
@@ -374,15 +374,15 @@ fit <- mkinfit("FOMC", FOCUS_2006_C, quiet = TRUE) summary(fit)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:19 2016 -#> Date of summary: Fri Nov 18 22:52:19 2016 +#> Date of fit: Mon Nov 21 16:07:24 2016 +#> Date of summary: Mon Nov 21 16:07:24 2016 #> #> Equations: #> d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent #> #> Model predictions using solution type analytical #> -#> Fitted with method Port using 64 model solutions performed in 0.145 s +#> Fitted with method Port using 64 model solutions performed in 0.162 s #> #> Weighting: none #> @@ -451,7 +451,7 @@ m1 = mkinsub("SFO"))
#> Successfully compiled differential equation model from auto-generated C code.
# Fit the model to the FOCUS example dataset D using defaults print(system.time(fit <- mkinfit(SFO_SFO, FOCUS_2006_D, solution_type = "eigen", quiet = TRUE)))
#> user system elapsed -#> 1.244 1.176 0.911
coef(fit)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 1.368 1.244 1.029
coef(fit)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink #> 99.59848 -3.03822 -2.98030 -5.24750
endpoints(fit)
#> $ff #> parent_sink parent_m1 m1_sink #> 0.485524 0.514476 1.000000 @@ -528,7 +528,7 @@ #> Model cost at call 152 : 371.2134 #> Optimisation by method Port successfully terminated. #> user system elapsed -#> 0.724 0.040 0.713
coef(fit.deSolve)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 0.784 0.032 0.773
coef(fit.deSolve)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink #> 99.59848 -3.03822 -2.98030 -5.24750
endpoints(fit.deSolve)
#> $ff #> parent_sink parent_m1 m1_sink #> 0.485524 0.514476 1.000000 @@ -571,8 +571,8 @@ m1 = mkinsub("SFO"), use_of_ff = "max")
#> Successfully compiled differential equation model from auto-generated C code.
f.noweight <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, quiet = TRUE) summary(f.noweight)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:29 2016 -#> Date of summary: Fri Nov 18 22:52:29 2016 +#> Date of fit: Mon Nov 21 16:07:35 2016 +#> Date of summary: Mon Nov 21 16:07:35 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -580,7 +580,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 185 model solutions performed in 0.757 s +#> Fitted with method Port using 185 model solutions performed in 0.808 s #> #> Weighting: none #> @@ -692,8 +692,8 @@ #> 120 m1 33.31 2.879e+01 4.520e+00
f.irls <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, reweight.method = "obs", quiet = TRUE) summary(f.irls)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:31 2016 -#> Date of summary: Fri Nov 18 22:52:31 2016 +#> Date of fit: Mon Nov 21 16:07:37 2016 +#> Date of summary: Mon Nov 21 16:07:37 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -701,7 +701,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 486 model solutions performed in 2.046 s +#> Fitted with method Port using 486 model solutions performed in 2.071 s #> #> Weighting: none then iterative reweighting method obs #> @@ -813,8 +813,8 @@ #> 120 m1 33.31 2.881e+01 4.501e+00 2.722
f.w.mean <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, weight = "mean", quiet = TRUE) summary(f.w.mean)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:32 2016 -#> Date of summary: Fri Nov 18 22:52:32 2016 +#> Date of fit: Mon Nov 21 16:07:38 2016 +#> Date of summary: Mon Nov 21 16:07:38 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -822,7 +822,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 155 model solutions performed in 0.64 s +#> Fitted with method Port using 155 model solutions performed in 0.645 s #> #> Weighting: mean #> @@ -935,8 +935,8 @@ quiet = TRUE) summary(f.w.value)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:33 2016 -#> Date of summary: Fri Nov 18 22:52:33 2016 +#> Date of fit: Mon Nov 21 16:07:39 2016 +#> Date of summary: Mon Nov 21 16:07:39 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -944,7 +944,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 174 model solutions performed in 0.752 s +#> Fitted with method Port using 174 model solutions performed in 0.724 s #> #> Weighting: manual #> @@ -1057,8 +1057,8 @@ f.w.man <- mkinfit(SFO_SFO.ff, dw, err = "err.man", quiet = TRUE) summary(f.w.man)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:34 2016 -#> Date of summary: Fri Nov 18 22:52:34 2016 +#> Date of fit: Mon Nov 21 16:07:40 2016 +#> Date of summary: Mon Nov 21 16:07:40 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1066,7 +1066,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 316 model solutions performed in 1.28 s +#> Fitted with method Port using 316 model solutions performed in 1.306 s #> #> Weighting: manual #> @@ -1179,8 +1179,8 @@ reweight.method = "obs") summary(f.w.man.irls)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 22:52:37 2016 -#> Date of summary: Fri Nov 18 22:52:37 2016 +#> Date of fit: Mon Nov 21 16:07:43 2016 +#> Date of summary: Mon Nov 21 16:07:43 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1188,7 +1188,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 648 model solutions performed in 2.631 s +#> Fitted with method Port using 648 model solutions performed in 2.758 s #> #> Weighting: manual then iterative reweighting method obs #> -- cgit v1.2.1