From fac9d5fa6c70ebcf4cefab1b479dba4b97c892b7 Mon Sep 17 00:00:00 2001 From: hillalex Date: Wed, 24 Jul 2024 13:56:30 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20seroanal?= =?UTF-8?q?ytics/epikinetics@9fd23cf3ee038be14e2c768f90106b1ac0f89bef=20?= =?UTF-8?q?=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- 404.html | 2 +- LICENSE.html | 2 +- articles/data.html | 2 +- articles/index.html | 2 +- articles/model.html | 2 +- articles/scova.html | 2 +- authors.html | 2 +- index.html | 2 +- pkgdown.yml | 4 +-- reference/convert_log_scale_inverse.html | 2 +- reference/epikinetics-package.html | 2 +- reference/index.html | 2 +- reference/scova.html | 31 ++++++++++++++---------- reference/scova_priors.html | 2 +- 14 files changed, 32 insertions(+), 27 deletions(-) diff --git a/404.html b/404.html index 5307ad7..f46dd76 100644 --- a/404.html +++ b/404.html @@ -96,7 +96,7 @@

Page not found (404)

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/LICENSE.html b/LICENSE.html index 8d03c1f..7cd5009 100644 --- a/LICENSE.html +++ b/LICENSE.html @@ -265,7 +265,7 @@

How to Apply These Terms
-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/articles/data.html b/articles/data.html index 72df138..3d12066 100644 --- a/articles/data.html +++ b/articles/data.html @@ -163,7 +163,7 @@

simulate_population_trajectories

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/articles/index.html b/articles/index.html index a268477..9baaf05 100644 --- a/articles/index.html +++ b/articles/index.html @@ -73,7 +73,7 @@

All vignettes

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/articles/model.html b/articles/model.html index e8dbb69..ea5a89d 100644 --- a/articles/model.html +++ b/articles/model.html @@ -102,7 +102,7 @@

Model

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/articles/scova.html b/articles/scova.html index 4b350b9..d95374d 100644 --- a/articles/scova.html +++ b/articles/scova.html @@ -381,7 +381,7 @@

Figure 5

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/authors.html b/authors.html index eef774d..c8d2c5d 100644 --- a/authors.html +++ b/authors.html @@ -94,7 +94,7 @@

Citation

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/index.html b/index.html index f9cb083..21926e1 100644 --- a/index.html +++ b/index.html @@ -129,7 +129,7 @@

Developers

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/pkgdown.yml b/pkgdown.yml index 0ea4688..a3ae672 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -1,8 +1,8 @@ pandoc: 3.1.11 -pkgdown: 2.1.0.9000 +pkgdown: 2.1.0 pkgdown_sha: ~ articles: data: data.html model: model.html scova: scova.html -last_built: 2024-07-15T18:47Z +last_built: 2024-07-24T13:50Z diff --git a/reference/convert_log_scale_inverse.html b/reference/convert_log_scale_inverse.html index 8a812c4..8a32eaa 100644 --- a/reference/convert_log_scale_inverse.html +++ b/reference/convert_log_scale_inverse.html @@ -96,7 +96,7 @@

Value

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/reference/epikinetics-package.html b/reference/epikinetics-package.html index a89d01f..8951cfe 100644 --- a/reference/epikinetics-package.html +++ b/reference/epikinetics-package.html @@ -78,7 +78,7 @@

Author

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/reference/index.html b/reference/index.html index 6a7f561..d8491ef 100644 --- a/reference/index.html +++ b/reference/index.html @@ -82,7 +82,7 @@

All functions
-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/reference/scova.html b/reference/scova.html index dbb3140..559bffb 100644 --- a/reference/scova.html +++ b/reference/scova.html @@ -92,11 +92,12 @@

Usage

Arguments

priors
-

Object of type 'scova_priors'. Default scova_priors().

+

Object of type scova_priors. Default scova_priors().

data
-

Optional data table of model inputs. One of data or file must be provided.

+

Optional data table of model inputs. One of data or file must be provided. See the data vignette +for required columns: vignette("data", package = "epikinetics").

file_path
@@ -119,7 +120,7 @@

Arguments

Returns

-

An epikinetics::sam object.

+

An epikinetics::scova object.

@@ -225,8 +226,9 @@

ArgumentsArguments

Returns

-

A data.table containing titre values at time points. If summarise = TRUE, columns are t, p, k, me, lo, hi, -titre_type, and a column for each covariate in the hierarchical model. If summarise = FALSE, columns are t, p, k, +

A data.table containing titre values at time points. If summarise = TRUE, columns are t, me, lo, hi, +titre_type, and a column for each covariate in the hierarchical model. If summarise = FALSE, columns are t, .draw t0_pop, tp_pop, ts_pop, m1_pop, m2_pop, m3_pop, beta_t0, beta_tp, beta_ts, beta_m1, beta_m2, beta_m3, mu -.draw, titre_type and a column for each covariate in the hierarchical model. -lower and upper bounds of titre values; if summarise = FALSE then

+titre_type and a column for each covariate in the hierarchical model. See the data vignette for details: +vignette("data", package = "epikinetics")

@@ -261,7 +263,9 @@

Arguments

Returns

-

A data.table of peak and set titre values

+

A data.table of peak and set titre values. Columns are tire_type, mu_p, mu_s, rel_drop_me, mu_p_me, +mu_s_me, and a column for each covariate. See the data vignette for details: +vignette("data", package = "epikinetics")

@@ -296,9 +300,10 @@

Arguments

Returns

-

A data.table. If summarise = TRUE columns are calendar_date, titre_type, me, lo, hi. +

A data.table. If summarise = TRUE columns are calendar_date, titre_type, me, lo, hi, time_shift. If summarise = FALSE, columns are stan_id, draw, t, mu, titre_type, exposure_date, calendar_date, time_shift -and a column for each covariate in the hierarchical model.

+and a column for each covariate in the hierarchical model. See the data vignette for details: +vignette("data", package = "epikinetics").

@@ -317,7 +322,7 @@

Returns -

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.

diff --git a/reference/scova_priors.html b/reference/scova_priors.html index f205048..a53b780 100644 --- a/reference/scova_priors.html +++ b/reference/scova_priors.html @@ -107,7 +107,7 @@

Examples

-

Site built with pkgdown 2.1.0.9000.

+

Site built with pkgdown 2.1.0.