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CMT01A Concomitant Medication by Medication Class and Preferred Name.

cmt01a.Rd

A concomitant medication table with the number of subjects and the total number of treatments by medication class.

Usage 

cmt01a_main(
  adam_db,
  arm_var = "ARM",
  incl_n_treatment = TRUE,
  row_split_var = "ATC2",
  medname_var = "CMDECOD",
  lbl_overall = NULL,
  ...
)

cmt01a_pre(adam_db, ...)

cmt01a_post(
  tlg,
  prune_0 = TRUE,
  sort_by_freq = FALSE,
  row_split_var = "ATC2",
  medname_var = "CMDECOD",
  ...
)

cmt01a

Format

An object of class chevron_t of length 1.

Arguments

adam_db

(list of data.frames) object containing the ADaM datasets

arm_var

(string) variable used for column splitting

incl_n_treatment

(flag) include total number of treatments per medication.

row_split_var

(character) the variable defining the medication category. By default ATC2.

medname_var

(string) variable name of medical treatment name.

lbl_overall

(string) label used for overall column, if set to NULL the overall column is omitted

...

not used.

tlg

(TableTree, Listing or ggplot) object typically produced by a main function.

prune_0

(flag) remove 0 count rows

sort_by_freq

(flag) whether to sort medication class by frequency.

Details

  • Data should be filtered for concomitant medication. (ATIREL == "CONCOMITANT").

  • Numbers represent absolute numbers of subjects and fraction of N, or absolute numbers when specified.

  • Remove zero-count rows unless overridden with prune_0 = FALSE.

  • Split columns by arm.

  • Does not include a total column by default.

  • Sort by medication class alphabetically and within medication class by decreasing total number of patients with the specific medication.

Functions

  • cmt01a_main(): Main TLG function

  • cmt01a_pre(): Preprocessing

  • cmt01a_post(): Postprocessing

Note

  • adam_db object must contain an adcm table with the columns specified in row_split_var and medname_var as well as "CMSEQ".

Examples 

library(dplyr)
#> 
#> Attaching package: ‘dplyr’
#> The following objects are masked from ‘package:stats’:
#> 
#>     filter, lag
#> The following objects are masked from ‘package:base’:
#> 
#>     intersect, setdiff, setequal, union

proc_data <- syn_data
proc_data$adcm <- proc_data$adcm %>%
  filter(ATIREL == "CONCOMITANT")

run(cmt01a, proc_data)
#>   ATC Level 2 Text                                          A: Drug X    B: Placebo    C: Combination
#>     Other Treatment                                          (N=134)       (N=134)        (N=132)    
#>   ———————————————————————————————————————————————————————————————————————————————————————————————————
#>   Total number of patients with at least one treatment     117 (87.3%)   116 (86.6%)    116 (87.9%)  
#>   Total number of treatments                                   415           414            460      
#>   ATCCLAS2 A                                                                                         
#>     Total number of patients with at least one treatment   75 (56.0%)    79 (59.0%)      81 (61.4%)  
#>     Total number of treatments                                 134           137            143      
#>     medname A_2/3                                          53 (39.6%)    50 (37.3%)      56 (42.4%)  
#>     medname A_3/3                                          45 (33.6%)    54 (40.3%)      48 (36.4%)  
#>   ATCCLAS2 A p2                                                                                      
#>     Total number of patients with at least one treatment   45 (33.6%)    54 (40.3%)      48 (36.4%)  
#>     Total number of treatments                                 58            66              64      
#>     medname A_3/3                                          45 (33.6%)    54 (40.3%)      48 (36.4%)  
#>   ATCCLAS2 B                                                                                         
#>     Total number of patients with at least one treatment   83 (61.9%)    74 (55.2%)      88 (66.7%)  
#>     Total number of treatments                                 141           137            162      
#>     medname B_1/4                                          52 (38.8%)    57 (42.5%)      59 (44.7%)  
#>     medname B_4/4                                          50 (37.3%)    45 (33.6%)      55 (41.7%)  
#>   ATCCLAS2 B p2                                                                                      
#>     Total number of patients with at least one treatment   52 (38.8%)    57 (42.5%)      59 (44.7%)  
#>     Total number of treatments                                 75            82              83      
#>     medname B_1/4                                          52 (38.8%)    57 (42.5%)      59 (44.7%)  
#>   ATCCLAS2 B p3                                                                                      
#>     Total number of patients with at least one treatment   52 (38.8%)    57 (42.5%)      59 (44.7%)  
#>     Total number of treatments                                 75            82              83      
#>     medname B_1/4                                          52 (38.8%)    57 (42.5%)      59 (44.7%)  
#>   ATCCLAS2 C                                                                                         
#>     Total number of patients with at least one treatment   82 (61.2%)    84 (62.7%)      89 (67.4%)  
#>     Total number of treatments                                 140           140            155      
#>     medname C_2/2                                          52 (38.8%)    58 (43.3%)      60 (45.5%)  
#>     medname C_1/2                                          51 (38.1%)    50 (37.3%)      56 (42.4%)  
#>   ATCCLAS2 C p2                                                                                      
#>     Total number of patients with at least one treatment   82 (61.2%)    84 (62.7%)      89 (67.4%)  
#>     Total number of treatments                                 140           140            155      
#>     medname C_2/2                                          52 (38.8%)    58 (43.3%)      60 (45.5%)  
#>     medname C_1/2                                          51 (38.1%)    50 (37.3%)      56 (42.4%)  
#>   ATCCLAS2 C p3                                                                                      
#>     Total number of patients with at least one treatment   52 (38.8%)    58 (43.3%)      60 (45.5%)  
#>     Total number of treatments                                 69            73              80      
#>     medname C_2/2                                          52 (38.8%)    58 (43.3%)      60 (45.5%)