Welcome
This book provides examples of exposure-response analysis with Bayesian methods.
Install necessary packages
The examples utilizes BayesERtools
package.
You can install the package as follows:
install.packages ('BayesERtools' )
# devtools::install_github("genentech/BayesERtools") # development version
Note for developer
Run usethis::use_tidy_style(strict = FALSE)
before committing to ensure that the code is formatted appropriately.
Session info
Show the code
β Session info βββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββ
setting value
version R version 4.4.1 (2024-06-14)
os Ubuntu 22.04.5 LTS
system x86_64, linux-gnu
ui X11
language (EN)
collate en_US.UTF-8
ctype en_US.UTF-8
tz Etc/UTC
date 2025-02-17
pandoc 3.1.11 @ /usr/lib/rstudio-server/bin/quarto/bin/tools/x86_64/ (via rmarkdown)
β Packages βββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββ
package * version date (UTC) lib source
abind 1.4-8 2024-09-12 [2] RSPM (R 4.4.0)
arrayhelpers 1.1-0 2020-02-04 [1] RSPM (R 4.4.0)
backports 1.5.0 2024-05-23 [2] RSPM (R 4.4.0)
base64enc 0.1-3 2015-07-28 [2] RSPM (R 4.4.0)
BayesERtools * 0.2.1.1001 2025-02-17 [1] Github (genentech/BayesERtools@f12a766)
bayesplot * 1.11.1 2024-02-15 [2] RSPM (R 4.4.0)
boot 1.3-31 2024-08-28 [4] RSPM (R 4.4.1)
cachem 1.1.0 2024-05-16 [2] RSPM (R 4.4.0)
checkmate 2.3.2 2024-07-29 [2] RSPM (R 4.4.0)
cli 3.6.3 2024-06-21 [2] RSPM (R 4.4.0)
coda 0.19-4.1 2024-01-31 [2] RSPM (R 4.4.0)
codetools 0.2-20 2024-03-31 [4] RSPM (R 4.4.1)
colorspace 2.1-1 2024-07-26 [2] RSPM (R 4.4.0)
colourpicker 1.3.0 2023-08-21 [2] RSPM (R 4.4.0)
crosstalk 1.2.1 2023-11-23 [2] RSPM (R 4.4.0)
curl 5.2.3 2024-09-20 [2] RSPM (R 4.4.0)
devtools 2.4.5 2022-10-11 [1] RSPM (R 4.4.0)
digest 0.6.37 2024-08-19 [2] RSPM (R 4.4.0)
distributional 0.5.0 2024-09-17 [2] RSPM (R 4.4.0)
dplyr * 1.1.4 2023-11-17 [2] RSPM (R 4.4.0)
DT 0.33 2024-04-04 [2] RSPM (R 4.4.0)
dygraphs 1.1.1.6 2018-07-11 [2] RSPM (R 4.4.0)
ellipsis 0.3.2 2021-04-29 [1] RSPM (R 4.4.0)
evaluate 1.0.1 2024-10-10 [2] RSPM (R 4.4.0)
fansi 1.0.6 2023-12-08 [2] RSPM (R 4.4.0)
fastmap 1.2.0 2024-05-15 [2] RSPM (R 4.4.0)
forcats * 1.0.0 2023-01-29 [2] RSPM (R 4.4.0)
fs 1.6.4 2024-04-25 [2] RSPM (R 4.4.0)
generics 0.1.3 2022-07-05 [2] RSPM (R 4.4.0)
ggdist 3.3.2 2024-03-05 [1] RSPM (R 4.4.0)
ggplot2 * 3.5.1 2024-04-23 [2] RSPM (R 4.4.0)
glue 1.8.0 2024-09-30 [2] RSPM (R 4.4.0)
gridExtra 2.3 2017-09-09 [2] RSPM (R 4.4.0)
gt * 0.11.1 2024-10-04 [1] RSPM (R 4.4.0)
gtable 0.3.5 2024-04-22 [2] RSPM (R 4.4.0)
gtools 3.9.5 2023-11-20 [2] RSPM (R 4.4.0)
here * 1.0.1 2020-12-13 [1] RSPM (R 4.4.0)
hms 1.1.3 2023-03-21 [2] RSPM (R 4.4.0)
htmltools 0.5.8.1 2024-04-04 [2] RSPM (R 4.4.0)
htmlwidgets 1.6.4 2023-12-06 [2] RSPM (R 4.4.0)
httpuv 1.6.15 2024-03-26 [2] RSPM (R 4.4.0)
igraph 2.0.3 2024-03-13 [2] RSPM (R 4.4.0)
inline 0.3.19 2021-05-31 [2] RSPM (R 4.4.0)
jsonlite 1.8.9 2024-09-20 [2] RSPM (R 4.4.0)
knitr 1.48 2024-07-07 [2] RSPM (R 4.4.0)
later 1.3.2 2023-12-06 [2] RSPM (R 4.4.0)
lattice 0.22-6 2024-03-20 [4] RSPM (R 4.4.1)
lifecycle 1.0.4 2023-11-07 [2] RSPM (R 4.4.0)
lme4 1.1-35.5 2024-07-03 [2] RSPM (R 4.4.0)
loo * 2.8.0 2024-07-03 [2] RSPM (R 4.4.0)
lubridate * 1.9.3 2023-09-27 [2] RSPM (R 4.4.0)
magrittr 2.0.3 2022-03-30 [2] RSPM (R 4.4.0)
markdown 1.13 2024-06-04 [2] RSPM (R 4.4.0)
MASS 7.3-61 2024-06-13 [4] RSPM (R 4.4.1)
Matrix 1.7-0 2024-04-26 [4] RSPM (R 4.4.1)
matrixStats 1.4.1 2024-09-08 [2] RSPM (R 4.4.0)
memoise 2.0.1 2021-11-26 [2] RSPM (R 4.4.0)
mime 0.12 2021-09-28 [2] RSPM (R 4.4.0)
miniUI 0.1.1.1 2018-05-18 [2] RSPM (R 4.4.0)
minqa 1.2.8 2024-08-17 [2] RSPM (R 4.4.0)
munsell 0.5.1 2024-04-01 [2] RSPM (R 4.4.0)
nlme 3.1-166 2024-08-14 [4] RSPM (R 4.4.1)
nloptr 2.1.1 2024-06-25 [2] RSPM (R 4.4.0)
pillar 1.9.0 2023-03-22 [2] RSPM (R 4.4.0)
pkgbuild 1.4.4 2024-03-17 [2] RSPM (R 4.4.0)
pkgconfig 2.0.3 2019-09-22 [2] RSPM (R 4.4.0)
pkgload 1.4.0 2024-06-28 [1] RSPM (R 4.4.0)
plyr 1.8.9 2023-10-02 [2] RSPM (R 4.4.0)
posterior * 1.6.0 2024-07-03 [2] RSPM (R 4.4.0)
profvis 0.4.0 2024-09-20 [1] RSPM (R 4.4.0)
promises 1.3.0 2024-04-05 [2] RSPM (R 4.4.0)
purrr * 1.0.2 2023-08-10 [2] RSPM (R 4.4.0)
QuickJSR 1.4.0 2024-10-01 [2] RSPM (R 4.4.0)
R6 2.5.1 2021-08-19 [2] RSPM (R 4.4.0)
Rcpp * 1.0.13 2024-07-17 [2] RSPM (R 4.4.0)
RcppParallel 5.1.9 2024-08-19 [2] RSPM (R 4.4.0)
readr * 2.1.5 2024-01-10 [2] RSPM (R 4.4.0)
remotes 2.5.0 2024-03-17 [2] RSPM (R 4.4.0)
reshape2 1.4.4 2020-04-09 [2] RSPM (R 4.4.0)
rlang 1.1.4 2024-06-04 [2] RSPM (R 4.4.0)
rmarkdown 2.28 2024-08-17 [2] RSPM (R 4.4.0)
rprojroot 2.0.4 2023-11-05 [1] RSPM (R 4.4.0)
rstan 2.32.6 2024-03-05 [2] RSPM (R 4.4.0)
rstanarm 2.32.1 2024-01-18 [2] RSPM (R 4.4.0)
rstanemax * 0.1.9 2025-02-17 [1] Github (yoshidk6/rstanemax@896b748)
rstantools 2.4.0 2024-01-31 [1] RSPM (R 4.4.0)
rstudioapi 0.16.0 2024-03-24 [2] RSPM (R 4.4.0)
scales 1.3.0 2023-11-28 [2] RSPM (R 4.4.0)
sessioninfo 1.2.2 2021-12-06 [1] RSPM (R 4.4.0)
shiny 1.9.1 2024-08-01 [2] RSPM (R 4.4.0)
shinyjs 2.1.0 2021-12-23 [2] RSPM (R 4.4.0)
shinystan 2.6.0 2022-03-03 [2] RSPM (R 4.4.0)
shinythemes 1.2.0 2021-01-25 [2] RSPM (R 4.4.0)
StanHeaders 2.32.10 2024-07-15 [2] RSPM (R 4.4.0)
stringi 1.8.4 2024-05-06 [2] RSPM (R 4.4.0)
stringr * 1.5.1 2023-11-14 [2] RSPM (R 4.4.0)
survival 3.7-0 2024-06-05 [4] RSPM (R 4.4.1)
svUnit 1.0.6 2021-04-19 [1] RSPM (R 4.4.0)
tensorA 0.36.2.1 2023-12-13 [2] RSPM (R 4.4.0)
threejs 0.3.3 2020-01-21 [2] RSPM (R 4.4.0)
tibble * 3.2.1 2023-03-20 [2] RSPM (R 4.4.0)
tidybayes * 3.0.7 2024-09-15 [1] RSPM (R 4.4.0)
tidyr * 1.3.1 2024-01-24 [2] RSPM (R 4.4.0)
tidyselect 1.2.1 2024-03-11 [2] RSPM (R 4.4.0)
tidyverse * 2.0.0 2023-02-22 [2] RSPM (R 4.4.0)
timechange 0.3.0 2024-01-18 [2] RSPM (R 4.4.0)
tzdb 0.4.0 2023-05-12 [2] RSPM (R 4.4.0)
urlchecker 1.0.1 2021-11-30 [1] RSPM (R 4.4.0)
usethis 3.0.0 2024-07-29 [1] RSPM (R 4.4.0)
utf8 1.2.4 2023-10-22 [2] RSPM (R 4.4.0)
V8 6.0.0 2024-10-12 [1] RSPM (R 4.4.0)
vctrs 0.6.5 2023-12-01 [2] RSPM (R 4.4.0)
withr 3.0.1 2024-07-31 [2] RSPM (R 4.4.0)
xfun 0.48 2024-10-03 [4] RSPM (R 4.4.1)
xml2 1.3.6 2023-12-04 [2] RSPM (R 4.4.0)
xtable 1.8-4 2019-04-21 [2] RSPM (R 4.4.0)
xts 0.14.0 2024-06-05 [2] RSPM (R 4.4.0)
yaml 2.3.10 2024-07-26 [2] RSPM (R 4.4.0)
zoo 1.8-12 2023-04-13 [2] RSPM (R 4.4.0)
[1] /home/yoshidk6/R/x86_64-pc-linux-gnu-library/4.4
[2] /usr/local/lib/R/site-library
[3] /usr/lib/R/site-library
[4] /usr/lib/R/library
ββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββββ