PKPT07

Table of Mean Dose-Normalized Selected Pharmacokinetic Parameters (Stats in Columns)

Output

Standard Table – Urine
Data Setup

Code

# lyt creation
lyt <- basic_table() %>%
  split_rows_by(
    var = "ARMCD",
    split_fun = trim_levels_in_group("ARMCD"),
    label_pos = "topleft",
    split_label = "Treatment Arm"
  ) %>%
  split_rows_by(
    var = "PKPARAM",
    label_pos = "topleft",
    split_label = "PK Parameter",
    child_labels = "hidden"
  ) %>%
  analyze_vars_in_cols(
    vars = "AVAL",
    .stats = c(
      "n", "mean", "sd", "cv",
      "geom_mean", "geom_cv", "median",
      "min", "max"
    ),
    .labels = c(
      n = "n",
      mean = "Mean",
      sd = "SD",
      cv = "CV (%)",
      geom_mean = "Geometric Mean",
      geom_cv = "CV % Geometric Mean",
      median = "Median",
      min = "Minimum",
      max = "Maximum"
    ),
    .formats = c(
      n = "xx.",
      mean = format_sigfig(3),
      sd = format_sigfig(3),
      cv = "xx.x",
      median = format_sigfig(3),
      geom_mean = format_sigfig(3),
      geom_cv = "xx.x",
      min = format_sigfig(3),
      max = format_sigfig(3)
    )
  )

Plasma Drug X

Preview
Try this using WebR

Code

adpp0 <- adpp %>%
  filter(PPCAT == "Plasma Drug X") %>%
  h_pkparam_sort() %>%
  mutate(PKPARAM = factor(paste0(TLG_DISPLAY, " (", AVALU, ")"))) %>%
  mutate(PKPARAM = reorder(PKPARAM, TLG_ORDER))

result <- build_table(lyt, df = adpp0)
main_title(result) <- paste("Summary of", unique(adpp0$PPSPEC), "PK Parameter by Treatment Arm, PK Population")
subtitles(result) <- paste("Analyte:", unique(adpp0$PPCAT), "\nVisit:", unique(adpp0$AVISIT))
result

Summary of Urine PK Parameter by Treatment Arm, PK Population
Analyte: Plasma Drug X 
Visit: CYCLE 1 DAY 1

—————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————
Treatment Arm                                                                                                                
  PK Parameter          n     Mean        SD      CV (%)   Geometric Mean   CV % Geometric Mean   Median    Minimum   Maximum
—————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————
ARM A                                                                                                                        
  RENALCLD (L/hr/mg)   134   0.00487   0.000965    19.8       0.00477              21.2           0.00497   0.00238   0.00726
ARM C                                                                                                                        
  RENALCLD (L/hr/mg)   132   0.00511   0.000934    18.3       0.00502              19.7           0.00515   0.00236   0.00741

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.

Code

adpp1 <- adpp %>%
  filter(PPCAT == "Plasma Drug Y") %>%
  h_pkparam_sort() %>%
  mutate(PKPARAM = factor(paste0(TLG_DISPLAY, " (", AVALU, ")"))) %>%
  mutate(PKPARAM = reorder(PKPARAM, TLG_ORDER))

result <- build_table(lyt, df = adpp1)
main_title(result) <- paste("Summary of", unique(adpp1$PPSPEC), "PK Parameter by Treatment Arm, PK Population")
subtitles(result) <- paste("Analyte:", unique(adpp1$PPCAT), "\nVisit:", unique(adpp1$AVISIT))
result

Summary of Urine PK Parameter by Treatment Arm, PK Population
Analyte: Plasma Drug Y 
Visit: CYCLE 1 DAY 1

————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————
Treatment Arm                                                                                                               
  PK Parameter          n     Mean       SD      CV (%)   Geometric Mean   CV % Geometric Mean   Median    Minimum   Maximum
————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————
ARM C                                                                                                                       
  RENALCLD (L/hr/mg)   132   0.00509   0.00103    20.3       0.00499              21.4           0.00502   0.00236   0.00794

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.

Code

library(dplyr)
library(tern)
library(stringr)

adpp <- random.cdisc.data::cadpp
adpp <- adpp %>%
  filter(AVISIT == "CYCLE 1 DAY 1", str_detect(tolower(PARAM), regex("norm by dose", ignore_case = TRUE)))

Reproducibility

Timestamp

[1] "2025-07-05 17:48:55 UTC"

Session Info

─ Session info ───────────────────────────────────────────────────────────────
 setting  value
 version  R version 4.5.0 (2025-04-11)
 os       Ubuntu 24.04.2 LTS
 system   x86_64, linux-gnu
 ui       X11
 language (EN)
 collate  en_US.UTF-8
 ctype    en_US.UTF-8
 tz       Etc/UTC
 date     2025-07-05
 pandoc   3.7.0.2 @ /usr/bin/ (via rmarkdown)
 quarto   1.7.32 @ /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                 3.6.5   2025-04-23 [1] RSPM
 codetools           0.2-20  2024-03-31 [2] CRAN (R 4.5.0)
 curl                6.4.0   2025-06-22 [1] RSPM
 dichromat           2.0-0.1 2022-05-02 [1] CRAN (R 4.5.0)
 digest              0.6.37  2024-08-19 [1] RSPM
 dplyr             * 1.1.4   2023-11-17 [1] RSPM
 evaluate            1.0.4   2025-06-18 [1] RSPM
 farver              2.1.2   2024-05-13 [1] RSPM
 fastmap             1.2.0   2024-05-15 [1] RSPM
 formatters        * 0.5.11  2025-04-09 [1] RSPM
 generics            0.1.4   2025-05-09 [1] RSPM
 ggplot2             3.5.2   2025-04-09 [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
 lattice             0.22-7  2025-04-02 [2] CRAN (R 4.5.0)
 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 4.5.0)
 nestcolor           0.1.3   2025-01-21 [1] RSPM
 pillar              1.11.0  2025-07-04 [1] RSPM
 pkgcache            2.2.4   2025-05-26 [1] RSPM
 pkgconfig           2.0.3   2019-09-22 [1] RSPM
 processx            3.8.6   2025-02-21 [1] RSPM
 ps                  1.9.1   2025-04-12 [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  2024-10-10 [1] RSPM
 rbibutils           2.3     2024-10-04 [1] RSPM
 RColorBrewer        1.1-3   2022-04-03 [1] RSPM
 Rdpack              2.6.4   2025-04-09 [1] RSPM
 rlang               1.1.6   2025-04-11 [1] RSPM
 rmarkdown           2.29    2024-11-04 [1] RSPM
 rtables           * 0.6.13  2025-06-19 [1] RSPM
 scales              1.4.0   2025-04-24 [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 4.5.0)
 tern              * 0.9.9   2025-06-20 [1] RSPM
 testthat            3.2.3   2025-01-13 [1] RSPM
 tibble              3.3.0   2025-06-08 [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
 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/4.5
 * ── Packages attached to the search path.

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

`.lock` file

Download the .lock file and use renv::restore() on it to recreate environment used to generate this website.

Download

Output

Plasma Drug X

Plasma Drug Y

Reproducibility

Timestamp

Session Info

.lock file

`.lock` file