PKCG03

Plot of Mean PK Concentration Over Time by Cohort

Output

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Code

use_title <- "Plot of Mean (+/- SD) Plasma Concentrations Over Time by Treatment, \nPK Evaluable Patients"
use_subtitle <- "Analyte:"
use_footnote <- "Program: \nOutput:"

result <- g_lineplot(
  df = adpc,
  variables = control_lineplot_vars(
    x = "NFRLT",
    y = "AVAL",
    group_var = "ARM",
    paramcd = "PARAM",
    y_unit = "AVALU",
    subject_var = "USUBJID"
  ),
  alt_counts_df = adsl_f,
  y_lab = "Concentration",
  y_lab_add_paramcd = FALSE,
  y_lab_add_unit = TRUE,
  interval = "mean_sdi",
  whiskers = c("mean_sdi_lwr", "mean_sdi_upr"),
  title = use_title,
  subtitle = use_subtitle,
  caption = use_footnote,
  ggtheme = theme_nest()
)

plot <- result + theme(plot.caption = element_text(hjust = 0))
plot

Experimental use!

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R Code

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use_title <- "Plot of Mean (+/- SD) Plasma Concentrations Over Time by Treatment, \nPK Evaluable Patients"

use_subtitle <- "Analyte:"

use_footnote <- "Program: \nOutput:"

result <- g_lineplot(

df = adpc,

variables = control_lineplot_vars(

x = "NFRLT",

y = "AVAL",

group_var = "ARM",

paramcd = "PARAM",

y_unit = "AVALU",

subject_var = "USUBJID"

alt_counts_df = adsl_f,

y_lab = "Concentration",

y_lab_add_paramcd = FALSE,

y_lab_add_unit = TRUE,

interval = "mean_sdi",

whiskers = c("mean_sdi_lwr", "mean_sdi_upr"),

title = use_title,

subtitle = use_subtitle,

caption = use_footnote,

ggtheme = theme_nest()

)

plot <- result + theme(plot.caption = element_text(hjust = 0))

plot

_webr_editor_2 = Object {code: "use_title <- \"Plot of Mean (+/- SD) Plasma Concent…heme(plot.caption = element_text(hjust = 0))\nplot", options: Object, indicator: Ke}

Preview
Try this using WebR

Code

use_title <- "Plot of Mean (+/- SD) Log-Scale Plasma Concentrations Over Time by Treatment, \nPK Evaluable Patients"
use_subtitle <- "Analyte:"
use_footnote <- "Program: \nOutput:"

adpc <- adpc %>%
  mutate(avalog = ifelse(AVAL != 0, AVAL, 0.001))

result <- g_lineplot(
  df = adpc,
  variables = control_lineplot_vars(
    x = "NFRLT",
    y = "avalog",
    group_var = "ARM",
    paramcd = "PARAM",
    y_unit = "AVALU",
    subject_var = "USUBJID"
  ),
  alt_counts_df = adsl_f,
  y_lab = "Concentration",
  y_lab_add_paramcd = FALSE,
  y_lab_add_unit = TRUE,
  interval = "mean_sdi",
  whiskers = c("mean_sdi_lwr", "mean_sdi_upr"),
  title = use_title,
  subtitle = use_subtitle,
  caption = use_footnote,
  ggtheme = theme_nest()
)

plot <- result + theme(plot.caption = element_text(hjust = 0)) +
  ggplot2::scale_y_log10(breaks = c(0.001, 0.01, 0.1, 1, 10), labels = c(0.001, 0.01, 0.1, 1, 10))

Scale for y is already present.
Adding another scale for y, which will replace the existing scale.

Code

plot

Experimental use!

WebR is a tool allowing you to run R code in the web browser. Modify the code below and click run to see the results. Alternatively, copy the code and click here to open WebR in a new tab.

R Code

Start Over

Run Code

use_title <- "Plot of Mean (+/- SD) Log-Scale Plasma Concentrations Over Time by Treatment, \nPK Evaluable Patients"

use_subtitle <- "Analyte:"

use_footnote <- "Program: \nOutput:"

adpc <- adpc %>%

mutate(avalog = ifelse(AVAL != 0, AVAL, 0.001))

result <- g_lineplot(

df = adpc,

variables = control_lineplot_vars(

x = "NFRLT",

y = "avalog",

group_var = "ARM",

paramcd = "PARAM",

y_unit = "AVALU",

subject_var = "USUBJID"

alt_counts_df = adsl_f,

y_lab = "Concentration",

y_lab_add_paramcd = FALSE,

y_lab_add_unit = TRUE,

interval = "mean_sdi",

whiskers = c("mean_sdi_lwr", "mean_sdi_upr"),

title = use_title,

subtitle = use_subtitle,

caption = use_footnote,

ggtheme = theme_nest()

)

plot <- result + theme(plot.caption = element_text(hjust = 0)) +

ggplot2::scale_y_log10(breaks = c(0.001, 0.01, 0.1, 1, 10), labels = c(0.001, 0.01, 0.1, 1, 10))

plot

_webr_editor_3 = Object {code: "use_title <- \"Plot of Mean (+/- SD) Log-Scale Plas…1, 10), labels = c(0.001, 0.01, 0.1, 1, 10))\nplot", options: Object, indicator: Ke}

Code

library(tern)
library(dplyr)
library(ggplot2)
library(nestcolor)

adsl_f <- random.cdisc.data::cadsl %>%
  filter(SAFFL == "Y" & ARM != "B: Placebo") %>%
  df_explicit_na()

adpc <- random.cdisc.data::cadpc %>%
  mutate(Patient_ID = sub(".*id-", "", USUBJID)) %>%
  filter(PARAM == "Plasma Drug X") %>%
  droplevels() %>%
  df_explicit_na()

Reproducibility

Timestamp

[1] "2025-04-05 18:05:28 UTC"

Session Info

─ Session info ───────────────────────────────────────────────────────────────
 setting  value
 version  R version 4.4.2 (2024-10-31)
 os       Ubuntu 24.04.1 LTS
 system   x86_64, linux-gnu
 ui       X11
 language (EN)
 collate  en_US.UTF-8
 ctype    en_US.UTF-8
 tz       Etc/UTC
 date     2025-04-05
 pandoc   3.6.3 @ /usr/bin/ (via rmarkdown)
 quarto   1.6.42 @ /usr/local/bin/quarto

─ Packages ───────────────────────────────────────────────────────────────────
 package           * version     date (UTC) lib source
 backports           1.5.0       2024-05-23 [1] RSPM
 brio                1.1.5       2024-04-24 [1] RSPM
 broom               1.0.8       2025-03-28 [1] RSPM
 checkmate           2.3.2       2024-07-29 [1] RSPM
 cli                 3.6.4       2025-02-13 [1] RSPM
 codetools           0.2-20      2024-03-31 [2] CRAN (R 4.4.2)
 colorspace          2.1-1       2024-07-26 [1] RSPM
 curl                6.2.2       2025-03-24 [1] RSPM
 digest              0.6.37      2024-08-19 [1] RSPM
 dplyr             * 1.1.4       2023-11-17 [1] RSPM
 evaluate            1.0.3       2025-01-10 [1] RSPM
 farver              2.1.2       2024-05-13 [1] RSPM
 fastmap             1.2.0       2024-05-15 [1] RSPM
 forcats             1.0.0       2023-01-29 [1] RSPM
 formatters        * 0.5.10.9004 2025-04-05 [1] https://p~
 generics            0.1.3       2022-07-05 [1] RSPM
 ggplot2           * 3.5.1       2024-04-23 [1] RSPM
 glue                1.8.0       2024-09-30 [1] RSPM
 gtable              0.3.6       2024-10-25 [1] RSPM
 htmltools           0.5.8.1     2024-04-04 [1] RSPM
 htmlwidgets         1.6.4       2023-12-06 [1] RSPM
 jsonlite            2.0.0       2025-03-27 [1] RSPM
 knitr               1.50        2025-03-16 [1] RSPM
 labeling            0.4.3       2023-08-29 [1] RSPM
 lattice             0.22-7      2025-04-02 [1] RSPM
 lifecycle           1.0.4       2023-11-07 [1] RSPM
 magrittr          * 2.0.3       2022-03-30 [1] RSPM
 Matrix              1.7-3       2025-03-11 [1] CRAN (R 4.4.2)
 munsell             0.5.1       2024-04-01 [1] RSPM
 nestcolor         * 0.1.3.9000  2025-04-05 [1] https://p~
 pillar              1.10.2      2025-04-05 [1] CRAN (R 4.4.2)
 pkgcache            2.2.3       2024-09-12 [1] RSPM
 pkgconfig           2.0.3       2019-09-22 [1] RSPM
 processx            3.8.6       2025-02-21 [1] RSPM
 ps                  1.9.0       2025-02-18 [1] RSPM
 purrr               1.0.4       2025-02-05 [1] RSPM
 R6                  2.6.1       2025-02-15 [1] RSPM
 random.cdisc.data   0.3.16.9002 2025-04-05 [1] https://p~
 rbibutils           2.3         2024-10-04 [1] RSPM
 Rdpack              2.6.3       2025-03-16 [1] RSPM
 rlang               1.1.5       2025-01-17 [1] RSPM
 rmarkdown           2.29        2024-11-04 [1] RSPM
 rtables           * 0.6.11.9017 2025-04-05 [1] https://p~
 scales              1.3.0       2023-11-28 [1] RSPM
 sessioninfo         1.2.3       2025-02-05 [1] any (@1.2.3)
 stringi             1.8.7       2025-03-27 [1] RSPM
 stringr             1.5.1       2023-11-14 [1] RSPM
 survival            3.8-3       2024-12-17 [2] CRAN (R 4.4.2)
 tern              * 0.9.7.9017  2025-04-05 [1] https://p~
 testthat            3.2.3       2025-01-13 [1] RSPM
 tibble              3.2.1       2023-03-20 [1] RSPM
 tidyr               1.3.1       2024-01-24 [1] RSPM
 tidyselect          1.2.1       2024-03-11 [1] RSPM
 vctrs               0.6.5       2023-12-01 [1] RSPM
 withr               3.0.2       2024-10-28 [1] RSPM
 xfun                0.52        2025-04-02 [1] RSPM
 yaml                2.3.10      2024-07-26 [1] RSPM

 [1] /usr/local/lib/R/site-library
 [2] /usr/local/lib/R/library
 [3] /github/home/R/x86_64-pc-linux-gnu-library/4.4
 * ── Packages attached to the search path.

──────────────────────────────────────────────────────────────────────────────

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Output

Reproducibility

Timestamp

Session Info

.lock file

`.lock` file