diff --git a/.Rbuildignore b/.Rbuildignore index 6522e51..07d478e 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -11,3 +11,4 @@ ^\.github$ ^CRAN-SUBMISSION$ ^cran-comments\.md$ +^vignettes/articles$ diff --git a/docs/LICENSE.html b/docs/LICENSE.html index 797514d..f261195 100644 --- a/docs/LICENSE.html +++ b/docs/LICENSE.html @@ -49,7 +49,6 @@
-

Version 3, 19 November 2007 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/>

Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed.

@@ -66,7 +65,7 @@

Preamble

TERMS AND CONDITIONS

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0. Definitions.

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0. Definitions.

“This License” refers to version 3 of the GNU Affero General Public License.

“Copyright” also means copyright-like laws that apply to other kinds of works, such as semiconductor masks.

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@@ -77,7 +76,7 @@

0. Definitions.An interactive user interface displays “Appropriate Legal Notices” to the extent that it includes a convenient and prominently visible feature that (1) displays an appropriate copyright notice, and (2) tells the user that there is no warranty for the work (except to the extent that warranties are provided), that licensees may convey the work under this License, and how to view a copy of this License. If the interface presents a list of user commands or options, such as a menu, a prominent item in the list meets this criterion.

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@@ -86,47 +85,38 @@

1. Source Code.The Corresponding Source for a work in source code form is that same work.

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2. Basic Permissions.

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2. Basic Permissions.

All rights granted under this License are granted for the term of copyright on the Program, and are irrevocable provided the stated conditions are met. This License explicitly affirms your unlimited permission to run the unmodified Program. The output from running a covered work is covered by this License only if the output, given its content, constitutes a covered work. This License acknowledges your rights of fair use or other equivalent, as provided by copyright law.

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      1. Convey the object code by offering access from a designated place (gratis or for a charge), and offer equivalent access to the Corresponding Source in the same way through the same place at no further charge. You need not require recipients to copy the Corresponding Source along with the object code. If the place to copy the object code is a network server, the Corresponding Source may be on a different server (operated by you or a third party) that supports equivalent copying facilities, provided you maintain clear directions next to the object code saying where to find the Corresponding Source. Regardless of what server hosts the Corresponding Source, you remain obligated to ensure that it is available for as long as needed to satisfy these requirements.
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    @@ -135,45 +125,39 @@

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7. Additional Terms.

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7. Additional Terms.

“Additional permissions” are terms that supplement the terms of this License by making exceptions from one or more of its conditions. Additional permissions that are applicable to the entire Program shall be treated as though they were included in this License, to the extent that they are valid under applicable law. If additional permissions apply only to part of the Program, that part may be used separately under those permissions, but the entire Program remains governed by this License without regard to the additional permissions.

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You may not propagate or modify a covered work except as expressly provided under this License. Any attempt otherwise to propagate or modify it is void, and will automatically terminate your rights under this License (including any patent licenses granted under the third paragraph of section 11).

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9. Acceptance Not Required for Having Copies.

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9. Acceptance Not Required for Having Copies.

You are not required to accept this License in order to receive or run a copy of the Program. Ancillary propagation of a covered work occurring solely as a consequence of using peer-to-peer transmission to receive a copy likewise does not require acceptance. However, nothing other than this License grants you permission to propagate or modify any covered work. These actions infringe copyright if you do not accept this License. Therefore, by modifying or propagating a covered work, you indicate your acceptance of this License to do so.

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10. Automatic Licensing of Downstream Recipients.

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10. Automatic Licensing of Downstream Recipients.

Each time you convey a covered work, the recipient automatically receives a license from the original licensors, to run, modify and propagate that work, subject to this License. You are not responsible for enforcing compliance by third parties with this License.

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11. Patents.

+

11. Patents.

A “contributor” is a copyright holder who authorizes use under this License of the Program or a work on which the Program is based. The work thus licensed is called the contributor’s “contributor version”.

A contributor’s “essential patent claims” are all patent claims owned or controlled by the contributor, whether already acquired or hereafter acquired, that would be infringed by some manner, permitted by this License, of making, using, or selling its contributor version, but do not include claims that would be infringed only as a consequence of further modification of the contributor version. For purposes of this definition, “control” includes the right to grant patent sublicenses in a manner consistent with the requirements of this License.

Each contributor grants you a non-exclusive, worldwide, royalty-free patent license under the contributor’s essential patent claims, to make, use, sell, offer for sale, import and otherwise run, modify and propagate the contents of its contributor version.

@@ -184,31 +168,31 @@

11. Patents. -

12. No Surrender of Others’ Freedom.

+

12. No Surrender of Others’ Freedom.

If conditions are imposed on you (whether by court order, agreement or otherwise) that contradict the conditions of this License, they do not excuse you from the conditions of this License. If you cannot convey a covered work so as to satisfy simultaneously your obligations under this License and any other pertinent obligations, then as a consequence you may not convey it at all. For example, if you agree to terms that obligate you to collect a royalty for further conveying from those to whom you convey the Program, the only way you could satisfy both those terms and this License would be to refrain entirely from conveying the Program.

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13. Remote Network Interaction; Use with the GNU General Public License.

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13. Remote Network Interaction; Use with the GNU General Public License.

Notwithstanding any other provision of this License, if you modify the Program, your modified version must prominently offer all users interacting with it remotely through a computer network (if your version supports such interaction) an opportunity to receive the Corresponding Source of your version by providing access to the Corresponding Source from a network server at no charge, through some standard or customary means of facilitating copying of software. This Corresponding Source shall include the Corresponding Source for any work covered by version 3 of the GNU General Public License that is incorporated pursuant to the following paragraph.

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14. Revised Versions of this License.

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14. Revised Versions of this License.

The Free Software Foundation may publish revised and/or new versions of the GNU Affero General Public License from time to time. Such new versions will be similar in spirit to the present version, but may differ in detail to address new problems or concerns.

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15. Disclaimer of Warranty.

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15. Disclaimer of Warranty.

THERE IS NO WARRANTY FOR THE PROGRAM, TO THE EXTENT PERMITTED BY APPLICABLE LAW. EXCEPT WHEN OTHERWISE STATED IN WRITING THE COPYRIGHT HOLDERS AND/OR OTHER PARTIES PROVIDE THE PROGRAM “AS IS” WITHOUT WARRANTY OF ANY KIND, EITHER EXPRESSED OR IMPLIED, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE ENTIRE RISK AS TO THE QUALITY AND PERFORMANCE OF THE PROGRAM IS WITH YOU. SHOULD THE PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF ALL NECESSARY SERVICING, REPAIR OR CORRECTION.

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16. Limitation of Liability.

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17. Interpretation of Sections 15 and 16.

+

17. Interpretation of Sections 15 and 16.

If the disclaimer of warranty and limitation of liability provided above cannot be given local legal effect according to their terms, reviewing courts shall apply local law that most closely approximates an absolute waiver of all civil liability in connection with the Program, unless a warranty or assumption of liability accompanies a copy of the Program in return for a fee.

END OF TERMS AND CONDITIONS

diff --git a/docs/articles/a_posteriori_dosing.html b/docs/articles/a_posteriori_dosing.html index d4bdc80..07444fe 100644 --- a/docs/articles/a_posteriori_dosing.html +++ b/docs/articles/a_posteriori_dosing.html @@ -73,13 +73,12 @@ - -
+

A posteriori dose selection

- Source: vignettes/a_posteriori_dosing.Rmd + Source: vignettes/articles/a_posteriori_dosing.Rmd
a_posteriori_dosing.Rmd
@@ -90,10 +89,7 @@

Introduction

-

Dosage individualization for a critical care patient treated with -amikacin for suspected ventilator-associated pneumonia, using the -population pharmacokinetic (ppk) model of Burdet et al. 2015, using the -data from therapeutic drug monitoring (TDM).

+

Dosage individualization for a critical care patient treated with amikacin for suspected ventilator-associated pneumonia, using the population pharmacokinetic (ppk) model of Burdet et al. 2015, using the data from therapeutic drug monitoring (TDM).

 mod_amikacin_Burdet2015 <- function() {
     ini({
@@ -135,10 +131,7 @@ 
A posteriori dose selection
 
Patient record with TDM data
 

-
After the first administration, the dosage selection can be refined
-using the results of TDM. See
-vignette("patient_data_input") for more details regarding
-the patient record.

+
After the first administration, the dosage selection can be refined using the results of TDM. See vignette("patient_data_input") for more details regarding the patient record.

 
 df_patientA <- data.frame(ID=1,TIME=c(0,1,6),
                               DV=c(NA,58,14),
@@ -151,14 +144,12 @@ 
Patient record with TDM data#> 1  1    0 NA    1 2000 0.5        50  62    169
 #> 2  1    1 58    0    0  NA        50  62    169
 #> 3  1    6 14    0    0  NA        50  62    169

-
The concentration measured 30 min after a 30 min infusion do not meet
-the target for a peak concentration; it is < 60 mg/L.

+
The concentration measured 30 min after a 30 min infusion do not meet the target for a peak concentration; it is < 60 mg/L.

Estimate the MAP individual parameters

-

The maximum a posteriori (MAP) individual parameters are -estimated.

+

The maximum a posteriori (MAP) individual parameters are estimated.

 patA_map <- poso_estim_map(dat=df_patientA,
                            prior_model=mod_amikacin_Burdet2015)
@@ -167,19 +158,15 @@ 
Estimate the MAP individual para
 

 
Plot the individual pharmacokinetic profile
 

-
The individual pharmacokinetic profile can be plotted using the
-rxode2 model provided by the poso_estim_map()
-function.

+
The individual pharmacokinetic profile can be plotted using the rxode2 model provided by the poso_estim_map() function.

 
 plot(patA_map$model,Cc)

 
Plot of the individual PK profile

 

 

-
Time required to reach the target Cmin following the first
-administration
+
Time required to reach the target Cmin following the first administration
 

-
With the MAP estimates of the individual parameters, the prediction
-of the time needed before reaching the target Cmin can be updated.

+
With the MAP estimates of the individual parameters, the prediction of the time needed before reaching the target Cmin can be updated.

 
 poso_time_cmin(dat=df_patientA,
                prior_model=mod_amikacin_Burdet2015,
@@ -193,21 +180,19 @@ 
#> [1] "point estimate"
 #> 
 #> $cmin_estimate
-#> [1] 2.487865
+#> [1] 2.487844
 #> 
 #> $indiv_param
 #>   THETA_Cl THETA_Vc THETA_Vp THETA_Q add_sd prop_sd    ETA_Cl    ETA_Vc
-#> 3      4.3     15.9     21.4    12.1    0.2     0.1 0.4499479 0.2730561
-#>      ETA_Vp    ETA_Q CLCREAT4H TBW PoverF
-#> 3 0.7061648 -0.13884        50  62    169

-
The next dose (if needed) can be administered 33.9 hours following
-the first infusion.

+#> 3      4.3     15.9     21.4    12.1    0.2     0.1 0.4499508 0.2730587
+#>      ETA_Vp      ETA_Q CLCREAT4H TBW PoverF
+#> 3 0.7061613 -0.1388429        50  62    169
+

The next dose (if needed) can be administered 33.9 hours following the first infusion.

Optimal dose selection a posteriori

-

The optimal dose to achieve a peak concentration of 80 mg/l can be -determined using the MAP estimates.

+

The optimal dose to achieve a peak concentration of 80 mg/l can be determined using the MAP estimates.

 map_dose <- poso_dose_conc(dat=df_patientA,
                            prior_model=mod_amikacin_Burdet2015,
@@ -228,16 +213,15 @@ 
Optimal dose selection a posteriori
 #> 
 #> $indiv_param
 #>   THETA_Cl THETA_Vc THETA_Vp THETA_Q add_sd prop_sd    ETA_Cl    ETA_Vc
-#> 3      4.3     15.9     21.4    12.1    0.2     0.1 0.4499608 0.2730596
+#> 3      4.3     15.9     21.4    12.1    0.2     0.1 0.4499511 0.2730605
 #>      ETA_Vp      ETA_Q CLCREAT4H TBW PoverF
-#> 3 0.7061496 -0.1388505        50  62    169
+#> 3 0.7061573 -0.1388445 50 62 169

The next dose should be 2450 mg.

Interdose interval selection a posteriori

-

The optimal inter-dose interval to reach a Cmin of 2.5 mg/L before -each dosing can be determined using the MAP estimates.

+

The optimal inter-dose interval to reach a Cmin of 2.5 mg/L before each dosing can be determined using the MAP estimates.

 map_interval <- poso_inter_cmin(dat=df_patientA,
                                 prior_model=mod_amikacin_Burdet2015,
@@ -246,7 +230,7 @@ 
Interdose interval selection
                                 target_cmin = 2.5)
 map_interval
 #> $interval
-#> [1] 38.57781
+#> [1] 38.57783
 #> 
 #> $type_of_estimate
 #> [1] "point estimate"
@@ -255,12 +239,11 @@ 
Interdose interval selection
 #> [1] 2.500173
 #> 
 #> $indiv_param
-#>   THETA_Cl THETA_Vc THETA_Vp THETA_Q add_sd prop_sd   ETA_Cl    ETA_Vc
-#> 1      4.3     15.9     21.4    12.1    0.2     0.1 0.449952 0.2730587
+#>   THETA_Cl THETA_Vc THETA_Vp THETA_Q add_sd prop_sd    ETA_Cl    ETA_Vc
+#> 1      4.3     15.9     21.4    12.1    0.2     0.1 0.4499517 0.2730584
 #>      ETA_Vp      ETA_Q CLCREAT4H TBW PoverF
-#> 1 0.7061588 -0.1388432        50  62    169
-

The interval between doses should not be less than 38.6 hours to -allow adequate elimination of amikacin between each infusion.

+#> 1 0.7061594 -0.1388427 50 62 169
+

The interval between doses should not be less than 38.6 hours to allow adequate elimination of amikacin between each infusion.

-

Overview

@@ -121,9 +120,7 @@

InstallationBayesian dosing example

To determine the optimal dose of gentamicin for a patient with posologyr, you will need:

-
    -
  1. A prior PK model, written in rxode2 mini-language
    2. -
+
  1. A prior PK model, written in rxode2 mini-language

In this example, a gentamicin PK from the literature doi:10.1016/j.ijantimicag.2003.07.010

 mod_gentamicin_Xuan2003 <- function() {
@@ -159,9 +156,7 @@ 
Bayesian dosing example    Cp ~ add(add_sd) + prop(prop_sd) + combined1()
   })
 }
-
    -
  1. A table of the patient’s TDM data, in a format similar to the data for NONMEM
    2. -
+
  1. A table of the patient’s TDM data, in a format similar to the data for NONMEM
 patient_data <- data.frame(ID=1,
                            TIME=c(0.0,1.0,11.0),
diff --git a/docs/news/index.html b/docs/news/index.html
index f038733..0b50272 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -65,30 +65,27 @@ 
Additional featureDocumentation

 
  • The README illustrates a simple example of dose adaptation
    • 
 
  • 
-vignette("route_of_administration") shows how to select a route of administration for optimal dosing
    • 
+vignette("route_of_administration") shows how to select a route of administration for optimal dosing
 
  • 
-vignette("population_models") describes the structure of prior population models written as model functions which can be parsed by rxode2 and used by posologyr
+vignette("population_models") describes the structure of prior population models written as model functions which can be parsed by rxode2 and used by posologyr
 
    • 
 
  • 
-vignette("posologyr_user_defined_models") is renamed vignette("classic_posologyr_models")
+vignette("posologyr_user_defined_models") is renamed vignette("classic_posologyr_models")
 
    • 
 
  • Examples use rxode2 model functions
    •

Bug fix

-
+

posologyr v1.2.4

CRAN release: 2024-02-09

-
+

posologyr v1.2.3

Bug fix

-
+

Documentation

posologyr v1.2.1

CRAN release: 2023-06-05

Internal changes

-
+

posologyr v1.1.0

@@ -155,8 +150,7 @@

Breaking changes

Additional features

  • -poso_estim_map() provides an rxode2 model using MAP-EBE and the input dataset, with interpolation of covariates, to make plotting easier
    • -

+poso_estim_map() provides an rxode2 model using MAP-EBE and the input dataset, with interpolation of covariates, to make plotting easier

Internal changes

+poso_time_cmin(), poso_dose_auc(), poso_dose_conc(), and poso_inter_cmin() no longer fail for models with IOV

posologyr v0.2.0

diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 85e0b7a..4a6fa92 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -2,15 +2,15 @@ pandoc: 3.1.11.1 pkgdown: 2.1.0 pkgdown_sha: ~ articles: - a_posteriori_dosing: a_posteriori_dosing.html - a_priori_dosing: a_priori_dosing.html - auc_based_dosing: auc_based_dosing.html - classic_posologyr_models: classic_posologyr_models.html - multiple_endpoints: multiple_endpoints.html - patient_data: patient_data.html - population_models: population_models.html - route_of_administration: route_of_administration.html -last_built: 2024-09-03T20:00Z + articles/a_posteriori_dosing: a_posteriori_dosing.html + articles/a_priori_dosing: a_priori_dosing.html + articles/auc_based_dosing: auc_based_dosing.html + articles/classic_posologyr_models: classic_posologyr_models.html + articles/multiple_endpoints: multiple_endpoints.html + articles/patient_data: patient_data.html + articles/population_models: population_models.html + articles/route_of_administration: route_of_administration.html +last_built: 2024-09-03T20:02Z urls: reference: https://levenc.github.io/posologyr/reference article: https://levenc.github.io/posologyr/articles diff --git a/docs/reference/poso_dose_auc.html b/docs/reference/poso_dose_auc.html index 42eb606..11e263a 100644 --- a/docs/reference/poso_dose_auc.html +++ b/docs/reference/poso_dose_auc.html @@ -262,7 +262,7 @@

Examples#> #> using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ #> $dose -#> [1] 396.0027 +#> [1] 396.0043 #> #> $type_of_estimate #> [1] "point estimate" @@ -271,8 +271,8 @@

Examples#> [1] 45 #> #> $indiv_param -#> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka -#> 1 4 70 1 0.2236068 0.6018995 -0.4291782 0.1278321 +#> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka +#> 1 4 70 1 0.2236068 0.6019038 -0.429173 0.1278482 #>

diff --git a/docs/reference/poso_dose_conc.html b/docs/reference/poso_dose_conc.html index 6d748e8..d533a7a 100644 --- a/docs/reference/poso_dose_conc.html +++ b/docs/reference/poso_dose_conc.html @@ -257,8 +257,9 @@

Examples#> #> #> +#> using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ #> $dose -#> [1] 6886.024 +#> [1] 6886.019 #> #> $type_of_estimate #> [1] "point estimate" @@ -268,7 +269,7 @@

Examples#> #> $indiv_param #> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka -#> 1 4 70 1 0.2236068 0.6019041 -0.4291723 0.1278484 +#> 1 4 70 1 0.2236068 0.6019036 -0.4291734 0.1278479 #> diff --git a/docs/reference/poso_estim_map.html b/docs/reference/poso_estim_map.html index 32b9ce2..5cb07b2 100644 --- a/docs/reference/poso_estim_map.html +++ b/docs/reference/poso_estim_map.html @@ -155,13 +155,13 @@

Examples#> #> $eta #> ETA_Cl ETA_Vc ETA_Ka -#> 0.6019038 -0.4291730 0.1278482 +#> 0.6019033 -0.4291738 0.1278478 #> #> $model #> ── Solved rxode2 object ── #> ── Parameters ($params): ── #> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka -#> 4.0000000 70.0000000 1.0000000 0.2236068 0.6019038 -0.4291730 0.1278482 +#> 4.0000000 70.0000000 1.0000000 0.2236068 0.6019033 -0.4291738 0.1278478 #> ── Initial Conditions ($inits): ── #> depot centr AUC #> 0 0 0 diff --git a/docs/reference/poso_estim_mcmc.html b/docs/reference/poso_estim_mcmc.html index 4c9e0e8..3443844 100644 --- a/docs/reference/poso_estim_mcmc.html +++ b/docs/reference/poso_estim_mcmc.html @@ -181,124 +181,124 @@

Examples#> #> #> $eta -#> ETA_Cl ETA_Vc ETA_Ka -#> 1 0.40129734 -0.221078172 0.930425874 -#> 2 0.46219626 -0.408861774 0.919479583 -#> 3 0.46733199 -0.303257501 0.231586070 -#> 4 0.70605689 -0.389072743 0.231586070 -#> 5 0.71226862 -0.460682597 0.220690179 -#> 6 0.45848168 -0.156826054 0.655923830 -#> 7 0.71578116 -0.356073917 0.443066290 -#> 8 0.39429314 -0.250227766 0.029447638 -#> 9 0.79934008 -0.300123505 0.029447638 -#> 10 0.64891523 -0.602467643 -0.257596645 -#> 11 0.68534557 -0.393584606 0.471011853 -#> 12 0.41497705 -0.469426296 0.200708751 -#> 13 -0.28560298 -0.336731063 0.574758130 -#> 14 0.69972327 -0.384404332 -0.094838457 -#> 15 0.56697115 -0.427648209 -0.154894296 -#> 16 0.52583412 -0.193851708 0.029564358 -#> 17 0.73647568 -0.145748104 0.240492264 -#> 18 0.72223572 -0.174057317 0.765403502 -#> 19 0.61003356 -0.349027845 0.290769918 -#> 20 0.69904470 -0.047834356 0.422258849 -#> 21 0.43859699 -0.612412417 -0.098503394 -#> 22 0.69096316 -0.051944909 0.914823122 -#> 23 0.54729672 0.005972018 0.337291445 -#> 24 0.27761493 -0.237833012 0.271761486 -#> 25 0.64326906 0.011240352 0.623424475 -#> 26 0.61126409 -0.364932526 -0.290915542 -#> 27 0.36850878 -0.351410700 0.388243848 -#> 28 0.27661006 -0.581498663 -0.230915305 -#> 29 -0.23732985 -0.526465862 0.407033222 -#> 30 0.19616325 -0.645638552 -0.494479393 -#> 31 0.47330453 -0.034944362 0.470257171 -#> 32 0.33639400 -0.515573239 -0.050276895 -#> 33 0.78830319 -0.387354276 -0.031447965 -#> 34 0.48064119 -0.343826881 0.244052299 -#> 35 0.60189998 0.034441740 0.469481783 -#> 36 0.77837261 -0.215748962 0.185718893 -#> 37 0.75914818 -0.176417195 0.302207225 -#> 38 0.68090244 -0.346820687 0.036191074 -#> 39 0.54490321 -0.629963624 0.473465262 -#> 40 0.49828937 -0.283363262 0.356249587 -#> 41 0.54257518 -0.494014971 0.374892911 -#> 42 0.62410466 -0.260718197 0.409061732 -#> 43 0.15855684 -0.878222982 -0.131889899 -#> 44 0.75140183 -0.141857343 0.326987451 -#> 45 0.07179731 -0.032165060 0.268610671 -#> 46 0.41210387 -0.258656564 0.462389655 -#> 47 0.74462060 -0.382517639 0.673070802 -#> 48 0.78287745 -0.073199344 0.521618599 -#> 49 0.73952962 0.231836592 0.907839064 -#> 50 0.53905726 -0.042012025 0.483275077 -#> 51 0.00000000 0.000000000 0.000000000 -#> 52 0.42534184 -0.403708105 1.056572451 -#> 53 0.55618191 -0.264477715 0.046032939 -#> 54 0.45520633 -0.679464662 -0.016242431 -#> 55 0.44009565 -0.409873762 0.340896578 -#> 56 0.57429692 -0.387726602 0.613547280 -#> 57 0.54488941 -0.287829000 0.140149483 -#> 58 0.48402318 -0.798975605 0.161344579 -#> 59 0.56660040 -0.479785996 0.138614462 -#> 60 0.61758410 -0.297867848 0.278458135 -#> 61 0.73780864 0.023043168 0.551507628 -#> 62 0.68002525 -0.319894513 0.234239231 -#> 63 0.89503107 -0.037166313 0.600292939 -#> 64 0.78780453 -0.263742002 0.175122402 -#> 65 0.51360658 0.052946634 0.892954576 -#> 66 0.64420451 -0.318996298 0.650988522 -#> 67 0.68813422 -0.251065357 0.415733557 -#> 68 0.78325406 0.094584973 0.439275927 -#> 69 0.48416155 -0.480703520 0.124244451 -#> 70 0.48645250 -0.663751410 0.007279203 -#> 71 0.42371624 -0.511424673 0.239185177 -#> 72 0.79998492 -0.327110133 -0.287008745 -#> 73 0.55606168 -0.300343887 -0.103813643 -#> 74 -0.18397797 -0.957175830 0.033660836 -#> 75 0.33043554 -0.828096146 -0.054257139 -#> 76 0.18819311 -0.839629729 0.143333722 -#> 77 0.08262417 -0.414383051 -0.225163689 -#> 78 0.37230513 -0.375817501 0.666112298 -#> 79 0.51699274 -0.934285571 -0.299695700 -#> 80 0.08783468 -0.800477076 -0.147109306 -#> 81 0.68133590 -0.368815872 0.040840687 -#> 82 0.65031284 -0.323466120 0.398707403 -#> 83 0.52147855 -0.586734782 -0.127577976 -#> 84 0.71718247 -0.171249178 0.372917693 -#> 85 0.52524631 -0.377795316 0.640937425 -#> 86 0.80589852 0.156365752 0.993932092 -#> 87 0.43878864 -0.746336825 0.356184103 -#> 88 0.13803478 -0.812773685 0.083051161 -#> 89 0.49241332 -0.249973773 0.507466133 -#> 90 0.81523875 -0.116686814 0.532386442 -#> 91 0.28613945 -0.434134521 -0.055910865 -#> 92 0.16400899 -0.611578714 -0.265540778 -#> 93 0.49782289 -0.500626081 0.300302428 -#> 94 0.69449874 -0.069173401 0.542000876 -#> 95 0.44901310 -0.630662806 -0.542320029 -#> 96 0.39487244 0.142613375 1.402640547 -#> 97 0.64429477 -0.461460431 0.136638918 -#> 98 0.57768550 -0.319792195 0.097921632 -#> 99 0.56412639 -0.496782084 -0.041628981 -#> 100 0.32575969 -0.106694594 0.762696118 +#> ETA_Cl ETA_Vc ETA_Ka +#> 1 0.1844208 -0.43805309 0.5589599433 +#> 2 0.1702946 -0.65343916 0.1772172345 +#> 3 0.1547268 -0.71269139 0.0521570306 +#> 4 0.3819019 -0.59969530 0.1515927910 +#> 5 0.6566451 -0.38319787 -0.0714505765 +#> 6 0.3781985 -0.69843562 -0.1871125603 +#> 7 0.4369133 -0.73026322 -0.0592865960 +#> 8 -0.1574308 -0.04286925 0.2664079840 +#> 9 0.2520540 -0.76552810 0.7851955315 +#> 10 0.3463545 -0.87047463 -0.1839729890 +#> 11 0.6784458 -0.35395065 -0.0047872087 +#> 12 0.6072037 -0.69603594 -0.1395369306 +#> 13 0.7438610 -0.43034035 -0.0700554309 +#> 14 0.7438610 -0.17441492 0.1601942250 +#> 15 0.5072936 -0.57262383 -0.0736425268 +#> 16 0.6238319 -0.51164915 0.0493567341 +#> 17 0.5018634 0.01850689 0.7438441110 +#> 18 0.8231393 -0.23037458 0.4495101423 +#> 19 0.7339266 -0.23037458 0.4495101423 +#> 20 0.6192160 -0.41009690 -0.1031305035 +#> 21 0.3083109 -0.97581677 -0.4396286302 +#> 22 0.4254984 -0.99078584 -0.3567426205 +#> 23 0.5828894 -0.67236291 -0.2972581086 +#> 24 0.5828226 -0.65971302 -0.0800784307 +#> 25 0.6305524 -0.34233136 0.0213730534 +#> 26 0.5052878 -0.48230648 0.3752040101 +#> 27 0.4204808 -0.62579618 0.1195915534 +#> 28 0.6403227 -0.17561995 0.5538499595 +#> 29 0.5901522 -0.32024753 0.3430964679 +#> 30 0.4009766 -0.19878880 0.3441395366 +#> 31 0.5584779 -0.37425079 0.2437752596 +#> 32 0.7375154 -0.57724261 -0.2563781613 +#> 33 0.2769516 -0.91104803 -0.4564882387 +#> 34 0.3578926 -1.09047058 -0.5538847410 +#> 35 0.5198541 -0.54839228 0.2429224252 +#> 36 0.6113854 -0.34950276 0.5131425888 +#> 37 0.5604968 -0.09046750 0.5611541593 +#> 38 0.1814259 -0.24608783 0.4342569698 +#> 39 0.4102265 -0.08196872 0.8200357479 +#> 40 0.6392396 -0.29629692 0.5648894331 +#> 41 0.4753098 -0.74649139 -0.2040274604 +#> 42 0.6456799 -0.56160960 -0.4158774867 +#> 43 0.4983860 -0.58955742 -0.3342173927 +#> 44 0.6255700 -0.46159965 -0.2173076636 +#> 45 0.4563637 -0.59827848 -0.0304088043 +#> 46 0.2812374 -0.52037136 0.1561507754 +#> 47 0.4992919 -0.66218053 0.3170746691 +#> 48 0.1671170 -0.81543614 0.0007025171 +#> 49 0.2701360 -0.70903040 -0.4097055185 +#> 50 0.4467154 -0.30572110 0.8988434537 +#> 51 0.0000000 0.00000000 0.0000000000 +#> 52 0.4432430 -0.19959941 -0.0182360984 +#> 53 0.6507309 -0.23441443 0.5517944803 +#> 54 0.7883359 -0.26204071 0.0441133809 +#> 55 0.7841662 -0.42529071 0.3095634469 +#> 56 0.3094279 -0.28857171 0.1862077489 +#> 57 0.7510996 -0.35096414 0.2429222616 +#> 58 0.4643780 -0.14385902 0.2549082856 +#> 59 0.8734574 -0.03900315 0.5617039297 +#> 60 0.3957196 -0.70907875 -0.1982888720 +#> 61 0.5726123 -0.41609870 0.5798524130 +#> 62 0.6503596 -0.24594603 0.2186818875 +#> 63 0.5975696 -0.19069546 0.2061462199 +#> 64 0.5891815 -0.52517129 0.2635254393 +#> 65 0.4646913 -0.73255335 0.4256222090 +#> 66 0.6844460 -0.05074335 1.1366032540 +#> 67 0.4581476 -0.22463899 0.4254299350 +#> 68 0.7046095 0.19784770 0.7410062393 +#> 69 0.5571614 -0.03723236 0.0843635788 +#> 70 0.7551196 0.01634314 0.4715239820 +#> 71 0.8003644 0.02486649 0.7843992012 +#> 72 0.6050803 -0.47232483 0.1225824277 +#> 73 0.5764811 -0.52297163 0.2357184626 +#> 74 0.4445525 -0.50004446 0.1803458273 +#> 75 0.5956160 -0.25531119 0.3832833207 +#> 76 0.6455107 -0.57474626 0.0369711416 +#> 77 0.7193022 -0.35355033 0.2163061638 +#> 78 0.9101741 0.14641048 0.6897415101 +#> 79 0.4845060 -0.43303924 0.4692957211 +#> 80 0.5835763 -0.26022039 0.0899865641 +#> 81 0.4486918 -0.40186572 0.1217597636 +#> 82 0.5834377 -0.71840370 -0.2779697962 +#> 83 0.4502321 -0.14998718 0.0415319870 +#> 84 0.3982273 -0.42345381 0.2799825343 +#> 85 0.2774437 -0.63031671 0.2306799747 +#> 86 0.5425262 -0.40931725 -0.0575336196 +#> 87 0.7647374 -0.11205551 0.5384090961 +#> 88 0.4876078 -0.78084003 -0.1802243063 +#> 89 0.5263299 -0.39573556 -0.0032796324 +#> 90 -0.4628368 -0.22318771 0.3111785403 +#> 91 0.3519512 -0.64220949 0.2113238574 +#> 92 0.3852560 -0.56464553 -0.0445950666 +#> 93 0.8507789 0.06801904 0.5116342655 +#> 94 0.4247760 -0.68044889 0.3097495127 +#> 95 0.9184119 -0.06631377 0.8903765697 +#> 96 0.7878075 -0.20266299 1.3348373375 +#> 97 0.6881082 -0.21275893 1.0036443668 +#> 98 0.6547887 -0.41678319 0.0918646560 +#> 99 0.4965296 -0.64374584 -0.3236602162 +#> 100 0.4101506 -0.60223557 0.5909147000 #> #> $model #> ── Solved rxode2 object ── #> ── Parameters ($params): ── #> # A tibble: 100 × 8 -#> sim.id THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka -#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> -#> 1 1 4 70 1 0.224 0.401 -0.221 0.930 -#> 2 2 4 70 1 0.224 0.462 -0.409 0.919 -#> 3 3 4 70 1 0.224 0.467 -0.303 0.232 -#> 4 4 4 70 1 0.224 0.706 -0.389 0.232 -#> 5 5 4 70 1 0.224 0.712 -0.461 0.221 -#> 6 6 4 70 1 0.224 0.458 -0.157 0.656 -#> 7 7 4 70 1 0.224 0.716 -0.356 0.443 -#> 8 8 4 70 1 0.224 0.394 -0.250 0.0294 -#> 9 9 4 70 1 0.224 0.799 -0.300 0.0294 -#> 10 10 4 70 1 0.224 0.649 -0.602 -0.258 +#> sim.id THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka +#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> +#> 1 1 4 70 1 0.224 0.184 -0.438 0.559 +#> 2 2 4 70 1 0.224 0.170 -0.653 0.177 +#> 3 3 4 70 1 0.224 0.155 -0.713 0.0522 +#> 4 4 4 70 1 0.224 0.382 -0.600 0.152 +#> 5 5 4 70 1 0.224 0.657 -0.383 -0.0715 +#> 6 6 4 70 1 0.224 0.378 -0.698 -0.187 +#> 7 7 4 70 1 0.224 0.437 -0.730 -0.0593 +#> 8 8 4 70 1 0.224 -0.157 -0.0429 0.266 +#> 9 9 4 70 1 0.224 0.252 -0.766 0.785 +#> 10 10 4 70 1 0.224 0.346 -0.870 -0.184 #> # ℹ 90 more rows #> ── Initial Conditions ($inits): ── #> depot centr AUC @@ -308,14 +308,14 @@

Examples#> #> ── First part of data (object): ── #> # A tibble: 200 × 14 -#> sim.id time TVCl TVVc TVKa Cl Vc Ka K20 rxCc Cc depot -#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> -#> 1 1 1 4 70 1 5.98 56.1 2.54 0.106 28.4 28.4 3.19e+2 -#> 2 1 14 4 70 1 5.98 56.1 2.54 0.106 8.61 8.61 7.99e-9 -#> 3 2 1 4 70 1 6.35 46.5 2.51 0.137 33.7 33.7 3.25e+2 -#> 4 2 14 4 70 1 6.35 46.5 2.51 0.137 6.96 6.96 -2.81e-9 -#> 5 3 1 4 70 1 6.38 51.7 1.26 0.123 22.2 22.2 7.90e+2 -#> 6 3 14 4 70 1 6.38 51.7 1.26 0.123 7.85 7.85 6.03e-5 +#> sim.id time TVCl TVVc TVKa Cl Vc Ka K20 rxCc Cc depot +#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> +#> 1 1 1 4 70 1 4.81 45.2 1.75 0.106 30.4 30.4 5.56e+2 +#> 2 1 14 4 70 1 4.81 45.2 1.75 0.106 10.9 10.9 7.51e-8 +#> 3 2 1 4 70 1 4.74 36.4 1.19 0.130 30.4 30.4 8.29e+2 +#> 4 2 14 4 70 1 4.74 36.4 1.19 0.130 10.3 10.3 1.51e-4 +#> 5 3 1 4 70 1 4.67 34.3 1.05 0.136 29.7 29.7 9.18e+2 +#> 6 3 14 4 70 1 4.67 34.3 1.05 0.136 10.3 10.3 1.03e-3 #> # ℹ 194 more rows #> # ℹ 2 more variables: centr <dbl>, AUC <dbl> #> diff --git a/docs/reference/poso_estim_sir.html b/docs/reference/poso_estim_sir.html index 64829e0..ee95036 100644 --- a/docs/reference/poso_estim_sir.html +++ b/docs/reference/poso_estim_sir.html @@ -158,107 +158,107 @@

Examples#> #> #> $eta -#> ETA_Cl ETA_Vc ETA_Ka -#> 1 0.6504014 -0.46513521 0.43653693 -#> 2 0.7998906 -0.03341945 0.16662057 -#> 3 0.5739246 -0.05601440 0.71549851 -#> 4 0.7089199 -0.17563653 0.37654151 -#> 5 0.6224641 -0.44103680 0.11062341 -#> 6 0.5756166 -0.54744862 -0.11639086 -#> 7 0.2097388 -0.80535811 -0.39535473 -#> 8 0.4410245 -0.51368224 0.18837049 -#> 9 0.8041649 -0.20072306 0.23829165 -#> 10 0.3270809 -0.20504934 0.30219971 -#> 11 0.6224641 -0.44103680 0.11062341 -#> 12 0.6901039 -0.30108197 -0.14402225 -#> 13 0.5756166 -0.54744862 -0.11639086 -#> 14 0.6224641 -0.44103680 0.11062341 -#> 15 0.7089199 -0.17563653 0.37654151 -#> 16 0.7740971 -0.30891172 0.57370521 -#> 17 0.6504014 -0.46513521 0.43653693 -#> 18 0.6280538 -0.23392662 0.44682453 -#> 19 0.7089199 -0.17563653 0.37654151 -#> 20 0.3976482 -0.64529135 0.23007851 -#> 21 0.3425794 -0.70136613 0.12968425 -#> 22 0.5716248 -0.36818884 0.36830570 -#> 23 0.2097388 -0.80535811 -0.39535473 -#> 24 0.8530497 -0.23492316 0.25581125 -#> 25 0.6354166 -0.31357126 0.73866202 -#> 26 0.6280538 -0.23392662 0.44682453 -#> 27 0.5756166 -0.54744862 -0.11639086 -#> 28 0.8530497 -0.23492316 0.25581125 -#> 29 0.6354166 -0.31357126 0.73866202 -#> 30 0.5480420 -0.78238693 -0.54016365 -#> 31 0.6504014 -0.46513521 0.43653693 -#> 32 0.6956159 -0.25114851 0.92671472 -#> 33 0.3653215 -0.46129773 0.18425818 -#> 34 0.4621170 -0.71068616 0.26608879 -#> 35 0.2319779 -0.86032500 -0.48170475 -#> 36 0.6956159 -0.25114851 0.92671472 -#> 37 0.3313779 -0.54665431 0.48542548 -#> 38 0.7089199 -0.17563653 0.37654151 -#> 39 0.6947877 -0.46349506 0.19509695 -#> 40 0.4179024 -0.58931306 0.22519506 -#> 41 0.6224641 -0.44103680 0.11062341 -#> 42 0.5480420 -0.78238693 -0.54016365 -#> 43 0.3653215 -0.46129773 0.18425818 -#> 44 0.4796500 -0.65544436 -0.11063743 -#> 45 0.4737102 -0.05879126 0.68993753 -#> 46 0.6224641 -0.44103680 0.11062341 -#> 47 0.8041649 -0.20072306 0.23829165 -#> 48 0.6441458 -0.17385456 0.07400396 -#> 49 0.5480420 -0.78238693 -0.54016365 -#> 50 0.5480420 -0.78238693 -0.54016365 -#> 51 0.7089199 -0.17563653 0.37654151 -#> 52 0.3769539 -0.82826593 0.23448758 -#> 53 0.6834596 -0.07578277 0.01909532 -#> 54 0.2527094 -0.21569803 0.25635943 -#> 55 0.6431052 -0.37166373 -0.12400846 -#> 56 0.4410245 -0.51368224 0.18837049 -#> 57 0.7740971 -0.30891172 0.57370521 -#> 58 0.2319779 -0.86032500 -0.48170475 -#> 59 0.5716248 -0.36818884 0.36830570 -#> 60 0.6280538 -0.23392662 0.44682453 -#> 61 0.5756166 -0.54744862 -0.11639086 -#> 62 0.5716248 -0.36818884 0.36830570 -#> 63 0.6014266 -0.46330347 0.48532615 -#> 64 0.4621170 -0.71068616 0.26608879 -#> 65 0.2708922 -0.52232311 -0.08780402 -#> 66 0.5739246 -0.05601440 0.71549851 -#> 67 0.5716248 -0.36818884 0.36830570 -#> 68 0.3946202 -0.37801414 0.10956928 -#> 69 0.6631807 0.37417320 1.32753128 -#> 70 0.6224641 -0.44103680 0.11062341 -#> 71 0.6177660 0.34344899 0.79709830 -#> 72 0.4796500 -0.65544436 -0.11063743 -#> 73 0.6280538 -0.23392662 0.44682453 -#> 74 0.2324490 -0.80580463 -0.28471752 -#> 75 0.3270809 -0.20504934 0.30219971 -#> 76 0.6224641 -0.44103680 0.11062341 -#> 77 0.7089199 -0.17563653 0.37654151 -#> 78 0.6224641 -0.44103680 0.11062341 -#> 79 0.5716248 -0.36818884 0.36830570 -#> 80 0.5716248 -0.36818884 0.36830570 -#> 81 0.5756166 -0.54744862 -0.11639086 -#> 82 0.3769539 -0.82826593 0.23448758 -#> 83 0.6947877 -0.46349506 0.19509695 -#> 84 0.6504014 -0.46513521 0.43653693 -#> 85 0.5756166 -0.54744862 -0.11639086 -#> 86 0.6224641 -0.44103680 0.11062341 -#> 87 0.2944519 -0.31777262 0.32041506 -#> 88 0.5065188 -0.43510689 0.59017798 -#> 89 0.6354166 -0.31357126 0.73866202 -#> 90 0.5065188 -0.43510689 0.59017798 -#> 91 0.3951683 -0.42558280 0.21811956 -#> 92 0.2486862 -0.80758491 -0.05621151 -#> 93 0.7089199 -0.17563653 0.37654151 -#> 94 0.4796500 -0.65544436 -0.11063743 -#> 95 0.5065188 -0.43510689 0.59017798 -#> 96 0.3946202 -0.37801414 0.10956928 -#> 97 0.2196114 -0.43600196 0.46038729 -#> 98 0.1867108 -0.72833532 0.32243635 -#> 99 0.2496268 -0.29416330 0.40590506 -#> 100 0.6014266 -0.46330347 0.48532615 +#> ETA_Cl ETA_Vc ETA_Ka +#> 1 0.46161848 -0.716414881 0.614527562 +#> 2 0.52148246 -0.668239394 -0.295070271 +#> 3 0.62953829 -0.035668729 0.853513874 +#> 4 0.69590671 -0.283513665 0.509930085 +#> 5 0.50147609 -1.029637839 -0.621775927 +#> 6 0.49000963 -0.095834145 0.577837796 +#> 7 0.80066132 -0.051989362 0.560248504 +#> 8 0.63936787 -0.286972190 0.336041029 +#> 9 0.78109649 -0.047955417 0.397608759 +#> 10 0.67679514 -0.343639280 0.243496741 +#> 11 0.63936787 -0.286972190 0.336041029 +#> 12 -0.32395932 -0.085994280 0.517265600 +#> 13 0.80066132 -0.051989362 0.560248504 +#> 14 0.60507403 0.270746466 1.426091847 +#> 15 0.70589549 0.326374015 1.241231425 +#> 16 0.14990322 -0.902217106 -0.093434080 +#> 17 0.19718678 -0.352419760 0.044054866 +#> 18 0.67679514 -0.343639280 0.243496741 +#> 19 0.79220198 -0.209018428 0.651123420 +#> 20 0.39845486 -0.583596609 -0.291951889 +#> 21 0.39827282 -0.312986024 0.425138019 +#> 22 0.53161867 -0.844469274 -0.665155530 +#> 23 0.80066132 -0.051989362 0.560248504 +#> 24 0.37213313 -0.792808796 -0.262432455 +#> 25 0.93790898 -0.050599256 0.493316269 +#> 26 0.51040712 -0.269260549 -0.112023368 +#> 27 0.36447696 -0.497440651 0.473464037 +#> 28 0.36447696 -0.497440651 0.473464037 +#> 29 0.12590474 -0.022469370 0.797883506 +#> 30 0.79220198 -0.209018428 0.651123420 +#> 31 0.47447411 -0.298108306 -0.121546765 +#> 32 0.78229265 -0.376666334 0.459688153 +#> 33 0.16630386 -0.300950761 0.538725292 +#> 34 0.37213313 -0.792808796 -0.262432455 +#> 35 0.39827282 -0.312986024 0.425138019 +#> 36 0.40607742 -0.085998986 0.488732340 +#> 37 0.44243266 0.105975602 0.968274428 +#> 38 0.40607742 -0.085998986 0.488732340 +#> 39 0.37213313 -0.792808796 -0.262432455 +#> 40 0.57036658 -0.525414643 0.195565089 +#> 41 0.79220198 -0.209018428 0.651123420 +#> 42 0.41965191 -0.470263417 0.387193782 +#> 43 0.41976488 -0.580546047 0.307176745 +#> 44 0.52148246 -0.668239394 -0.295070271 +#> 45 0.78109649 -0.047955417 0.397608759 +#> 46 0.57059717 -0.291818295 0.117313670 +#> 47 0.77547337 0.151922192 0.342736220 +#> 48 0.67541201 -0.255922793 0.152039879 +#> 49 0.93790898 -0.050599256 0.493316269 +#> 50 0.56914542 0.214967421 0.692684071 +#> 51 0.63936787 -0.286972190 0.336041029 +#> 52 0.57036658 -0.525414643 0.195565089 +#> 53 0.69590671 -0.283513665 0.509930085 +#> 54 0.14990322 -0.902217106 -0.093434080 +#> 55 0.62953829 -0.035668729 0.853513874 +#> 56 0.80066132 -0.051989362 0.560248504 +#> 57 0.39827282 -0.312986024 0.425138019 +#> 58 0.15613558 -0.122753405 0.058341313 +#> 59 0.87912662 -0.037608066 0.203510757 +#> 60 0.41754683 -0.383638099 0.197262274 +#> 61 0.49000963 -0.095834145 0.577837796 +#> 62 0.34159502 -0.701549967 -0.315132899 +#> 63 0.46161848 -0.716414881 0.614527562 +#> 64 0.29021307 0.109017338 0.672013377 +#> 65 -0.05383047 0.006687033 0.483670322 +#> 66 0.36446593 -0.327182532 -0.010387411 +#> 67 0.70589549 0.326374015 1.241231425 +#> 68 0.79220198 -0.209018428 0.651123420 +#> 69 0.49000963 -0.095834145 0.577837796 +#> 70 0.36775106 -0.584814035 -0.203512166 +#> 71 0.36775106 -0.584814035 -0.203512166 +#> 72 0.41976488 -0.580546047 0.307176745 +#> 73 0.55135452 -0.156399508 0.293838236 +#> 74 0.35170607 -0.773528781 -0.106449398 +#> 75 0.37213313 -0.792808796 -0.262432455 +#> 76 0.57059717 -0.291818295 0.117313670 +#> 77 0.63936787 -0.286972190 0.336041029 +#> 78 0.28861106 -0.604615595 0.418534879 +#> 79 0.69590671 -0.283513665 0.509930085 +#> 80 0.78829119 -0.293509629 0.123613089 +#> 81 0.36104585 -1.050722649 -0.227844833 +#> 82 0.78229265 -0.376666334 0.459688153 +#> 83 0.57036658 -0.525414643 0.195565089 +#> 84 0.53941782 -0.644512133 0.862252763 +#> 85 0.44984492 -0.259441665 0.638764520 +#> 86 0.57036658 -0.525414643 0.195565089 +#> 87 0.53161867 -0.844469274 -0.665155530 +#> 88 0.13557690 -0.300215648 0.393477546 +#> 89 0.63936787 -0.286972190 0.336041029 +#> 90 0.67679514 -0.343639280 0.243496741 +#> 91 0.23422745 -0.552345193 -0.007780037 +#> 92 0.52148246 -0.668239394 -0.295070271 +#> 93 0.52148246 -0.668239394 -0.295070271 +#> 94 0.79220198 -0.209018428 0.651123420 +#> 95 0.60507403 0.270746466 1.426091847 +#> 96 0.57036658 -0.525414643 0.195565089 +#> 97 0.78829119 -0.293509629 0.123613089 +#> 98 0.80066132 -0.051989362 0.560248504 +#> 99 0.80066132 -0.051989362 0.560248504 +#> 100 0.87694988 -0.056807607 0.902475597 #> #> $model #> ── Solved rxode2 object ── @@ -266,16 +266,16 @@

Examples#> # A tibble: 100 × 8 #> sim.id THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka #> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> -#> 1 1 4 70 1 0.224 0.650 -0.465 0.437 -#> 2 2 4 70 1 0.224 0.800 -0.0334 0.167 -#> 3 3 4 70 1 0.224 0.574 -0.0560 0.715 -#> 4 4 4 70 1 0.224 0.709 -0.176 0.377 -#> 5 5 4 70 1 0.224 0.622 -0.441 0.111 -#> 6 6 4 70 1 0.224 0.576 -0.547 -0.116 -#> 7 7 4 70 1 0.224 0.210 -0.805 -0.395 -#> 8 8 4 70 1 0.224 0.441 -0.514 0.188 -#> 9 9 4 70 1 0.224 0.804 -0.201 0.238 -#> 10 10 4 70 1 0.224 0.327 -0.205 0.302 +#> 1 1 4 70 1 0.224 0.462 -0.716 0.615 +#> 2 2 4 70 1 0.224 0.521 -0.668 -0.295 +#> 3 3 4 70 1 0.224 0.630 -0.0357 0.854 +#> 4 4 4 70 1 0.224 0.696 -0.284 0.510 +#> 5 5 4 70 1 0.224 0.501 -1.03 -0.622 +#> 6 6 4 70 1 0.224 0.490 -0.0958 0.578 +#> 7 7 4 70 1 0.224 0.801 -0.0520 0.560 +#> 8 8 4 70 1 0.224 0.639 -0.287 0.336 +#> 9 9 4 70 1 0.224 0.781 -0.0480 0.398 +#> 10 10 4 70 1 0.224 0.677 -0.344 0.243 #> # ℹ 90 more rows #> ── Initial Conditions ($inits): ── #> depot centr AUC @@ -285,14 +285,14 @@

Examples#> #> ── First part of data (object): ── #> # A tibble: 200 × 14 -#> sim.id time TVCl TVVc TVKa Cl Vc Ka K20 rxCc Cc depot -#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> -#> 1 1 1 4 70 1 7.67 44.0 1.55 0.174 28.5 28.5 6.42e+2 -#> 2 1 14 4 70 1 7.67 44.0 1.55 0.174 4.66 4.66 1.18e-6 -#> 3 2 1 4 70 1 8.90 67.7 1.18 0.131 16.2 16.2 8.37e+2 -#> 4 2 14 4 70 1 8.90 67.7 1.18 0.131 5.45 5.45 1.79e-4 -#> 5 3 1 4 70 1 7.10 66.2 2.05 0.107 22.2 22.2 4.50e+2 -#> 6 3 14 4 70 1 7.10 66.2 2.05 0.107 7.30 7.30 1.20e-9 +#> sim.id time TVCl TVVc TVKa Cl Vc Ka K20 rxCc Cc depot +#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> +#> 1 1 1 4 70 1 6.35 34.2 1.85 0.186 39.8 39.8 5.18e+ 2 +#> 2 1 14 4 70 1 6.35 34.2 1.85 0.186 5.07 5.07 1.88e- 8 +#> 3 2 1 4 70 1 6.74 35.9 0.744 0.188 21.9 21.9 1.15e+ 3 +#> 4 2 14 4 70 1 6.74 35.9 0.744 0.188 5.64 5.64 7.21e- 2 +#> 5 3 1 4 70 1 7.51 67.5 2.35 0.111 22.9 22.9 3.64e+ 2 +#> 6 3 14 4 70 1 7.51 67.5 2.35 0.111 6.74 6.74 -6.23e-10 #> # ℹ 194 more rows #> # ℹ 2 more variables: centr <dbl>, AUC <dbl> #> diff --git a/docs/reference/poso_inter_cmin.html b/docs/reference/poso_inter_cmin.html index 1a630a4..2b6ea9c 100644 --- a/docs/reference/poso_inter_cmin.html +++ b/docs/reference/poso_inter_cmin.html @@ -230,7 +230,7 @@

Examples#> #> #> $interval -#> [1] 17.76028 +#> [1] 17.7603 #> #> $type_of_estimate #> [1] "point estimate" @@ -240,7 +240,7 @@

Examples#> #> $indiv_param #> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka -#> 1 4 70 1 0.2236068 0.6019035 -0.4291739 0.1278471 +#> 1 4 70 1 0.2236068 0.6019045 -0.4291709 0.1278489 #> diff --git a/docs/reference/poso_simu_pop.html b/docs/reference/poso_simu_pop.html index 34686d0..c7108ec 100644 --- a/docs/reference/poso_simu_pop.html +++ b/docs/reference/poso_simu_pop.html @@ -143,107 +143,107 @@

Examples#> #> #> $eta -#> ETA_Cl ETA_Vc ETA_Ka -#> 1 0.12788489 -0.8474363696 0.972933500 -#> 2 0.15044931 -0.6165957725 -0.288257826 -#> 3 -0.26290512 0.5912277997 -1.384240405 -#> 4 0.06358117 -1.0524378667 0.292384536 -#> 5 -0.04738660 0.3020810818 0.017593578 -#> 6 0.08829972 1.0646795643 0.177153842 -#> 7 -0.56754035 -0.3004684498 0.086744472 -#> 8 -0.17353057 0.0297399528 -0.239102222 -#> 9 -0.37204606 -0.0681723758 0.667158179 -#> 10 0.13349896 0.0284245681 0.181822898 -#> 11 -0.12622407 0.6860145096 -0.234266909 -#> 12 -0.24704093 -0.0306282674 -0.549257201 -#> 13 -0.16917794 0.4382400402 -0.012830985 -#> 14 0.19623634 0.7074781593 -0.136171803 -#> 15 0.28794308 -0.0661337956 -0.073951692 -#> 16 -0.10032863 -0.0136452244 -0.871130218 -#> 17 -0.37228285 -0.0663627695 -0.336515849 -#> 18 0.50185856 -0.1880645348 0.398147597 -#> 19 0.16715147 0.7078051051 -0.294626263 -#> 20 0.24462343 -0.0151938765 -0.366482185 -#> 21 -0.78361129 -0.4687277771 0.172885315 -#> 22 -0.14383402 0.6361751832 -0.223703774 -#> 23 -0.14275268 -0.4155070297 0.001112369 -#> 24 0.07919262 -0.0923541265 -1.028548245 -#> 25 0.32541141 -0.3991711915 0.158204676 -#> 26 -0.41127178 0.2498722022 0.534857269 -#> 27 -0.24468315 0.1749402395 0.541677063 -#> 28 -0.20073218 0.1098069426 0.994336524 -#> 29 -0.28347955 -0.4408523470 0.175145338 -#> 30 0.06856882 0.0635693077 0.328021625 -#> 31 0.72545211 -0.3352657120 -0.722663525 -#> 32 0.25653428 0.0234340351 -0.406303331 -#> 33 0.37959016 0.3802766057 -0.076283200 -#> 34 -0.31170568 0.7406108899 -0.065524473 -#> 35 0.05754786 0.7310744062 -0.549295961 -#> 36 0.08559765 0.1137295326 -0.326162522 -#> 37 0.12743126 0.4451818055 -0.237158833 -#> 38 -0.06270716 -0.8739258173 0.548334921 -#> 39 -0.55583095 -0.3039715802 0.445685750 -#> 40 -0.12034899 -0.2824848002 0.556723874 -#> 41 0.41352429 -0.3565260587 -0.343045638 -#> 42 -0.25671247 0.4915157307 0.366315463 -#> 43 -0.01111643 -0.4709172790 -0.087432011 -#> 44 -0.38215972 -0.7138946687 -0.677261388 -#> 45 -0.76348667 0.1181884539 -0.546778736 -#> 46 -0.21289274 0.2845195196 0.837286700 -#> 47 0.12095204 0.1063290947 1.054290892 -#> 48 -0.65677056 0.6579158907 0.208758285 -#> 49 -0.01757885 -0.0588808083 0.371926925 -#> 50 -0.24673067 -0.1805240163 -0.097830097 -#> 51 0.39191046 0.4159538681 -0.037967541 -#> 52 -0.87001416 -0.0101960308 -0.244342202 -#> 53 0.69353025 0.3160638259 0.007746790 -#> 54 0.76718629 -0.5305894330 0.687736930 -#> 55 -0.15600010 -0.5372649408 0.233664676 -#> 56 -0.22696478 0.3977303316 -0.325538825 -#> 57 0.34939402 0.3356843830 -0.460650352 -#> 58 -0.33446585 -0.4592726994 -0.762361942 -#> 59 0.56771730 -0.0018453990 0.164049535 -#> 60 0.02221040 -0.2074472251 -0.245654268 -#> 61 -0.43756583 0.4004970612 -0.323059623 -#> 62 0.22864983 -0.1643911881 -0.385340511 -#> 63 0.04960210 -0.9753202418 -0.156391704 -#> 64 0.41269427 0.9290324438 0.488513823 -#> 65 0.48279891 0.5271998013 -0.145369898 -#> 66 -0.01509115 -0.3794736224 0.633903308 -#> 67 0.07928208 0.2879443073 -0.147487550 -#> 68 0.20664080 0.0326334612 0.362415054 -#> 69 0.06363990 0.8187491113 0.398934107 -#> 70 -0.06412535 0.4812014182 -0.191628561 -#> 71 0.44473418 0.3355002381 -0.190077991 -#> 72 -0.35786214 -0.6259152421 0.309481419 -#> 73 0.39099910 -0.8330321749 0.258486502 -#> 74 0.60591300 0.7522020684 0.003734992 -#> 75 0.14105591 -0.0772794560 0.199033893 -#> 76 0.11255801 0.0686682135 -0.014146813 -#> 77 0.29403252 -0.7716550381 -0.377551574 -#> 78 -0.10415015 -0.4098232879 -0.277269197 -#> 79 0.04687274 0.3381934530 0.466881915 -#> 80 -0.01657469 -0.0004508222 -0.274059996 -#> 81 0.34703845 -0.1353410256 -0.518273028 -#> 82 -0.77759568 0.0783792867 -0.009475904 -#> 83 0.09837731 -0.2966746333 -0.151063236 -#> 84 0.86918648 0.5425733777 -0.484762337 -#> 85 -0.20056939 -0.0337251850 0.880821557 -#> 86 0.22423405 0.2266253611 0.098053962 -#> 87 -0.06289958 -0.0805403600 -0.328896523 -#> 88 0.91974567 1.2345015201 1.176161346 -#> 89 0.87918576 0.2155617721 0.643564140 -#> 90 -0.82927912 -0.3592766936 -0.700110707 -#> 91 -0.34914053 0.0990080614 -0.229746377 -#> 92 -0.22935254 -0.0841394013 -0.248344505 -#> 93 -0.22056017 0.1123495210 0.058659532 -#> 94 -0.24618351 0.1502172258 -0.043350296 -#> 95 0.61466996 0.3262538319 -0.020061632 -#> 96 -0.26323832 -0.1269916789 0.930418768 -#> 97 0.73455148 -0.0915474373 0.805957437 -#> 98 -0.03921193 0.1359026367 0.274076390 -#> 99 0.14639569 -0.1606572049 -0.790413751 -#> 100 0.08872456 0.5419509531 -0.251199157 +#> ETA_Cl ETA_Vc ETA_Ka +#> 1 1.509733e-02 -0.016186364 -0.52679899 +#> 2 -5.065591e-01 0.159582056 -0.12083643 +#> 3 -3.402884e-01 -0.169764753 0.62537101 +#> 4 -1.556625e-02 -0.083026187 -0.40598895 +#> 5 -4.225858e-01 0.388054331 0.76373040 +#> 6 5.766502e-02 0.472789504 0.01560593 +#> 7 1.272383e-01 0.479519960 -0.01932000 +#> 8 -4.678293e-02 0.143768214 -0.16376177 +#> 9 1.442827e-01 -0.210819602 -0.11415598 +#> 10 1.373633e-02 -0.783946398 -0.14714587 +#> 11 -6.077227e-01 0.310746294 -0.42885063 +#> 12 -1.534199e-01 0.055884964 -0.34751056 +#> 13 2.428810e-01 -0.338450231 0.14203658 +#> 14 -4.800486e-01 0.408987673 -0.26153526 +#> 15 4.765925e-02 0.335450664 -0.52468882 +#> 16 1.105351e-01 -0.401941402 -0.05765038 +#> 17 3.776152e-01 -0.140522589 -0.35108615 +#> 18 2.810179e-01 -0.471003701 -0.13318097 +#> 19 2.336511e-01 0.216193619 0.03164949 +#> 20 -7.452898e-01 0.119738012 0.23306728 +#> 21 7.650526e-02 -0.434502128 -0.04988265 +#> 22 -2.007812e-01 -0.526480474 -0.17362858 +#> 23 -5.092078e-01 -0.061090908 -0.17439658 +#> 24 2.337833e-01 -0.010218500 0.34012453 +#> 25 -3.547032e-01 -0.581185456 0.24508276 +#> 26 2.959496e-01 0.195121715 0.26155660 +#> 27 -7.395556e-02 -0.028523080 -0.27195278 +#> 28 2.567295e-01 -0.165186564 -0.17145398 +#> 29 -1.880491e-01 0.146760354 -0.78936597 +#> 30 -4.386245e-01 -0.527549991 0.16738600 +#> 31 -5.700471e-01 0.301636092 -0.16243644 +#> 32 1.938019e-01 0.269485385 -0.18439931 +#> 33 2.610015e-01 -0.040020795 -0.02163562 +#> 34 -3.958267e-01 -0.441250063 0.96602276 +#> 35 7.838248e-02 -0.483769430 0.19542081 +#> 36 -5.022530e-01 -0.627425065 0.25488459 +#> 37 -3.196284e-01 0.651172607 -0.13790850 +#> 38 3.364246e-01 0.779906791 0.64544032 +#> 39 2.436184e-01 0.245160056 -0.82777827 +#> 40 -5.346926e-01 0.009676858 0.50180182 +#> 41 8.009718e-01 0.503864539 0.22347708 +#> 42 5.034496e-01 0.435619372 -0.06418450 +#> 43 4.020605e-01 0.294447273 -0.09108545 +#> 44 -3.438734e-02 -0.472621016 0.15122555 +#> 45 -1.779681e-01 -0.310812946 -0.35791899 +#> 46 8.133532e-02 0.902326045 0.27394667 +#> 47 2.340458e-01 0.824833303 0.30876212 +#> 48 1.007434e-01 -0.251093484 -0.34481015 +#> 49 -2.598501e-01 0.631180458 0.71997301 +#> 50 2.023043e-01 -0.194051882 0.18650263 +#> 51 1.505199e-01 0.099820484 -0.16501937 +#> 52 9.241291e-02 -0.415205479 0.13583375 +#> 53 -8.863234e-01 0.815655132 0.52001258 +#> 54 5.723886e-01 0.706054216 0.19429468 +#> 55 1.485582e-01 -0.328449059 -0.57102991 +#> 56 5.132540e-01 -0.061339112 -0.65184530 +#> 57 6.244343e-01 -0.389777674 -0.32398450 +#> 58 3.184719e-01 0.342900862 0.36099688 +#> 59 4.555447e-02 -0.178798934 -0.19149676 +#> 60 -3.826410e-01 -0.392417878 0.60643613 +#> 61 2.214500e-01 -0.477350884 0.46744042 +#> 62 6.189829e-01 -1.045731659 0.26309320 +#> 63 -2.384927e-01 0.218179937 -0.02156128 +#> 64 7.140586e-01 1.466480496 0.37082036 +#> 65 4.729326e-01 -0.222973041 -0.63497526 +#> 66 1.882671e-02 -0.120701693 0.38346047 +#> 67 6.358933e-01 -0.272008317 0.05674449 +#> 68 4.416018e-01 -0.106041060 0.21729501 +#> 69 -8.509248e-01 0.514105036 0.41726888 +#> 70 -1.672575e-01 -0.311480882 -0.20727406 +#> 71 -7.834966e-02 0.752990336 -0.41392643 +#> 72 -2.864462e-01 0.098062354 0.11429091 +#> 73 8.666932e-01 -0.713095263 -0.35054982 +#> 74 -7.509757e-01 -0.378566836 0.61839686 +#> 75 -3.261728e-01 -0.317464254 0.42147870 +#> 76 6.126478e-01 -0.740255177 0.53250207 +#> 77 -2.018874e-01 -0.691384766 -0.18377623 +#> 78 4.067081e-01 0.065882537 0.27262689 +#> 79 1.834668e-01 0.599527805 -0.20296871 +#> 80 1.917972e-01 0.236414328 -0.35693471 +#> 81 2.725721e-01 1.414693131 1.00542110 +#> 82 -8.184843e-05 -0.222826401 0.15659665 +#> 83 3.276706e-01 -0.663560795 0.30690260 +#> 84 -4.664156e-01 -0.299638370 0.17032271 +#> 85 -2.121784e-01 1.057803427 0.05927526 +#> 86 -6.178694e-01 -0.245640977 0.11130505 +#> 87 3.157618e-01 0.450638415 -0.15717022 +#> 88 -1.754226e-01 0.778997712 -0.34891351 +#> 89 -5.971167e-01 0.117111697 -0.44168223 +#> 90 -1.136389e+00 -1.205529113 -0.41517518 +#> 91 -6.521712e-01 0.413118127 -0.44770183 +#> 92 1.638941e-01 0.191758884 -0.31244355 +#> 93 1.953781e-01 0.810612503 0.12871112 +#> 94 -1.139908e-01 0.899697081 -0.83085976 +#> 95 5.242689e-02 0.846107522 -0.02433113 +#> 96 2.049053e-01 -0.224359547 0.53554546 +#> 97 -5.278126e-02 0.046590127 0.18526015 +#> 98 4.875914e-01 0.503152935 -0.02522384 +#> 99 -1.559060e-02 -0.016935492 0.71474995 +#> 100 7.081456e-02 0.315723149 0.48204204 #> #> $model #> ── Solved rxode2 object ── @@ -251,16 +251,16 @@

Examples#> # A tibble: 100 × 8 #> sim.id THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka #> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> -#> 1 1 4 70 1 0.224 0.128 -0.847 0.973 -#> 2 2 4 70 1 0.224 0.150 -0.617 -0.288 -#> 3 3 4 70 1 0.224 -0.263 0.591 -1.38 -#> 4 4 4 70 1 0.224 0.0636 -1.05 0.292 -#> 5 5 4 70 1 0.224 -0.0474 0.302 0.0176 -#> 6 6 4 70 1 0.224 0.0883 1.06 0.177 -#> 7 7 4 70 1 0.224 -0.568 -0.300 0.0867 -#> 8 8 4 70 1 0.224 -0.174 0.0297 -0.239 -#> 9 9 4 70 1 0.224 -0.372 -0.0682 0.667 -#> 10 10 4 70 1 0.224 0.133 0.0284 0.182 +#> 1 1 4 70 1 0.224 0.0151 -0.0162 -0.527 +#> 2 2 4 70 1 0.224 -0.507 0.160 -0.121 +#> 3 3 4 70 1 0.224 -0.340 -0.170 0.625 +#> 4 4 4 70 1 0.224 -0.0156 -0.0830 -0.406 +#> 5 5 4 70 1 0.224 -0.423 0.388 0.764 +#> 6 6 4 70 1 0.224 0.0577 0.473 0.0156 +#> 7 7 4 70 1 0.224 0.127 0.480 -0.0193 +#> 8 8 4 70 1 0.224 -0.0468 0.144 -0.164 +#> 9 9 4 70 1 0.224 0.144 -0.211 -0.114 +#> 10 10 4 70 1 0.224 0.0137 -0.784 -0.147 #> # ℹ 90 more rows #> ── Initial Conditions ($inits): ── #> depot centr AUC @@ -270,16 +270,16 @@

Examples#> #> ── First part of data (object): ── #> # A tibble: 15,100 × 14 -#> sim.id time TVCl TVVc TVKa Cl Vc Ka K20 rxCc Cc depot centr -#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> -#> 1 1 0 4 70 1 4.55 30.0 2.65 0.152 0 0 0 0 -#> 2 1 0.1 4 70 1 4.55 30.0 2.65 0.152 1.61 1.61 351. 48.3 -#> 3 1 0.2 4 70 1 4.55 30.0 2.65 0.152 5.90 5.90 621. 177. -#> 4 1 0.3 4 70 1 4.55 30.0 2.65 0.152 12.2 12.2 828. 366. -#> 5 1 0.4 4 70 1 4.55 30.0 2.65 0.152 20.0 20.0 987. 600. -#> 6 1 0.5 4 70 1 4.55 30.0 2.65 0.152 28.9 28.9 1109. 867. +#> sim.id time TVCl TVVc TVKa Cl Vc Ka K20 rxCc Cc depot +#> <int> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> +#> 1 1 0 4 70 1 4.06 68.9 0.590 0.0590 0 0 0 +#> 2 1 0.1 4 70 1 4.06 68.9 0.590 0.0590 0.168 0.168 388. +#> 3 1 0.2 4 70 1 4.06 68.9 0.590 0.0590 0.657 0.657 755. +#> 4 1 0.3 4 70 1 4.06 68.9 0.590 0.0590 1.45 1.45 1100. +#> 5 1 0.4 4 70 1 4.06 68.9 0.590 0.0590 2.52 2.52 1425. +#> 6 1 0.5 4 70 1 4.06 68.9 0.590 0.0590 3.86 3.86 1732. #> # ℹ 15,094 more rows -#> # ℹ 1 more variable: AUC <dbl> +#> # ℹ 2 more variables: centr <dbl>, AUC <dbl> #> #> $event #> ── EventTable with 152 records ── diff --git a/docs/reference/poso_time_cmin.html b/docs/reference/poso_time_cmin.html index 943e29f..e6fbd1a 100644 --- a/docs/reference/poso_time_cmin.html +++ b/docs/reference/poso_time_cmin.html @@ -276,8 +276,8 @@

Examples#> [1] 2.489933 #> #> $indiv_param -#> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka -#> 1 4 70 1 0.2236068 0.6019037 -0.4291733 0.127848 +#> THETA_Cl THETA_Vc THETA_Ka prop.sd ETA_Cl ETA_Vc ETA_Ka +#> 1 4 70 1 0.2236068 0.6019037 -0.4291733 0.1278479 #> diff --git a/vignettes/.gitignore b/vignettes/.gitignore new file mode 100644 index 0000000..097b241 --- /dev/null +++ b/vignettes/.gitignore @@ -0,0 +1,2 @@ +*.html +*.R diff --git a/vignettes/a_posteriori_dosing.Rmd b/vignettes/articles/a_posteriori_dosing.Rmd similarity index 100% rename from vignettes/a_posteriori_dosing.Rmd rename to vignettes/articles/a_posteriori_dosing.Rmd diff --git a/vignettes/a_priori_dosing.Rmd b/vignettes/articles/a_priori_dosing.Rmd similarity index 100% rename from vignettes/a_priori_dosing.Rmd rename to vignettes/articles/a_priori_dosing.Rmd diff --git a/vignettes/auc_based_dosing.Rmd b/vignettes/articles/auc_based_dosing.Rmd similarity index 100% rename from vignettes/auc_based_dosing.Rmd rename to vignettes/articles/auc_based_dosing.Rmd diff --git a/vignettes/classic_posologyr_models.Rmd b/vignettes/articles/classic_posologyr_models.Rmd similarity index 100% rename from vignettes/classic_posologyr_models.Rmd rename to vignettes/articles/classic_posologyr_models.Rmd diff --git a/vignettes/multiple_endpoints.Rmd b/vignettes/articles/multiple_endpoints.Rmd similarity index 100% rename from vignettes/multiple_endpoints.Rmd rename to vignettes/articles/multiple_endpoints.Rmd diff --git a/vignettes/patient_data.Rmd b/vignettes/articles/patient_data.Rmd similarity index 100% rename from vignettes/patient_data.Rmd rename to vignettes/articles/patient_data.Rmd diff --git a/vignettes/population_models.Rmd b/vignettes/articles/population_models.Rmd similarity index 100% rename from vignettes/population_models.Rmd rename to vignettes/articles/population_models.Rmd diff --git a/vignettes/route_of_administration.Rmd b/vignettes/articles/route_of_administration.Rmd similarity index 100% rename from vignettes/route_of_administration.Rmd rename to vignettes/articles/route_of_administration.Rmd