From 91c5db736a4d3f2290a0cc5698fb4e35ae7bda59 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Wed, 18 May 2022 21:26:17 +0200 Subject: Remove outdated comment in FOCUS L vignette, update docs This also adds the first benchmark results obtained on my laptop system --- docs/reference/confint.mkinfit.html | 48 ++++++++++++++++++------------------- 1 file changed, 24 insertions(+), 24 deletions(-) (limited to 'docs/reference/confint.mkinfit.html') diff --git a/docs/reference/confint.mkinfit.html b/docs/reference/confint.mkinfit.html index 806e94ca..5469f8f8 100644 --- a/docs/reference/confint.mkinfit.html +++ b/docs/reference/confint.mkinfit.html @@ -206,7 +206,7 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37, f_d_1 <- mkinfit(SFO_SFO, subset(FOCUS_2006_D, value != 0), quiet = TRUE) system.time(ci_profile <- confint(f_d_1, method = "profile", cores = 1, quiet = TRUE)) #> user system elapsed -#> 4.361 0.964 3.998 +#> 3.409 0.000 3.411 # Using more cores does not save much time here, as parent_0 takes up most of the time # If we additionally exclude parent_0 (the confidence of which is often of # minor interest), we get a nice performance improvement if we use at least 4 cores @@ -214,7 +214,7 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37, c("k_parent_sink", "k_parent_m1", "k_m1_sink", "sigma"), cores = n_cores)) #> Profiling the likelihood #> user system elapsed -#> 1.473 0.118 0.917 +#> 1.317 0.152 0.847 ci_profile #> 2.5% 97.5% #> parent_0 96.456003640 1.027703e+02 @@ -281,7 +281,7 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37, ci_quadratic_transformed_ff <- confint(f_d_2, method = "quadratic") ci_quadratic_transformed_ff #> 2.5% 97.5% -#> parent_0 96.403833578 102.79311649 +#> parent_0 96.403833565 102.79311648 #> k_parent 0.090823771 0.10725430 #> k_m1 0.004012219 0.00689755 #> f_parent_to_m1 0.469118824 0.55959615 @@ -289,7 +289,7 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37, ci_quadratic_untransformed_ff <- confint(f_d_2, method = "quadratic", transformed = FALSE) ci_quadratic_untransformed_ff #> 2.5% 97.5% -#> parent_0 96.403833583 1.027931e+02 +#> parent_0 96.403833570 1.027931e+02 #> k_parent 0.090491913 1.069035e-01 #> k_m1 0.003835485 6.685823e-03 #> f_parent_to_m1 0.469113477 5.598387e-01 @@ -309,17 +309,17 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37, #> sigma TRUE FALSE rel_diffs_transformed_ff #> 2.5% 97.5% -#> parent_0 0.0005408690 0.0002217233 -#> k_parent 0.0009598532 0.0009001864 -#> k_m1 0.0307283041 0.0290588361 -#> f_parent_to_m1 0.0046881769 0.0027780063 +#> parent_0 0.0005408691 0.0002217232 +#> k_parent 0.0009598534 0.0009001862 +#> k_m1 0.0307283050 0.0290588375 +#> f_parent_to_m1 0.0046881765 0.0027780058 #> sigma 0.0550252516 0.0327066836 rel_diffs_untransformed_ff #> 2.5% 97.5% -#> parent_0 0.0005408689 0.0002217232 -#> k_parent 0.0046102156 0.0023732281 -#> k_m1 0.0146740690 0.0025291820 -#> f_parent_to_m1 0.0046995211 0.0023457712 +#> parent_0 0.0005408691 0.0002217231 +#> k_parent 0.0046102157 0.0023732283 +#> k_m1 0.0146740682 0.0025291807 +#> f_parent_to_m1 0.0046995207 0.0023457708 #> sigma 0.0550252516 0.0327066836 # The profiling for the following fit does not finish in a reasonable time, @@ -333,19 +333,19 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37, error_model_algorithm = "direct", quiet = TRUE) confint(f_tc_2, method = "quadratic") #> 2.5% 97.5% -#> parent_0 94.596039609 106.19954892 -#> k_M1 0.037605368 0.04490762 -#> k_M2 0.008568731 0.01087676 -#> f_parent_to_M1 0.021462489 0.62023882 -#> f_parent_to_M2 0.015165617 0.37975348 -#> k1 0.273897348 0.33388101 -#> k2 0.018614554 0.02250378 -#> g 0.671943411 0.73583305 -#> sigma_low 0.251283495 0.83992077 -#> rsd_high 0.040411024 0.07662008 +#> parent_0 94.596210088 106.19935874 +#> k_M1 0.037605436 0.04490756 +#> k_M2 0.008568746 0.01087674 +#> f_parent_to_M1 0.021466645 0.62023879 +#> f_parent_to_M2 0.015168549 0.37975352 +#> k1 0.273897574 0.33388069 +#> k2 0.018614555 0.02250379 +#> g 0.671943815 0.73583258 +#> sigma_low 0.251283808 0.83992121 +#> rsd_high 0.040411010 0.07662004 confint(f_tc_2, "parent_0", method = "quadratic") #> 2.5% 97.5% -#> parent_0 94.59604 106.1995 +#> parent_0 94.59621 106.1994 # } @@ -361,7 +361,7 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37,
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