Creates a valid expression to generate an adverse events table by Standardized MedDRA Query.
template_smq(
dataname,
parentname,
arm_var,
llt = "AEDECOD",
add_total = TRUE,
total_label = default_total_label(),
sort_criteria = c("freq_desc", "alpha"),
drop_arm_levels = TRUE,
na_level = tern::default_na_str(),
smq_varlabel = "Standardized MedDRA Query",
baskets = c("SMQ01NAM", "SMQ02NAM", "CQ01NAM"),
id_var = "USUBJID",
basic_table_args = teal.widgets::basic_table_args()
)a list of expressions to generate a table or plot object.
(character)
analysis data used in teal module.
(character)
parent analysis data used in teal module, usually this refers to ADSL.
(character)
variable names that can be used as arm_var.
(character)
name of the variable with low level term for events.
(logical)
whether to include column with total number of patients.
(string)
string to display as total column/row label if column/row is
enabled (see add_total). Defaults to "All Patients". To set a new default total_label to
apply in all modules, run set_default_total_label("new_default").
(character)
how to sort the final table. Default option freq_desc sorts
on column sort_freq_col by decreasing number of patients with event. Alternative option alpha sorts events
alphabetically.
(logical)
whether to drop unused levels of arm_var. If TRUE, arm_var levels are
set to those used in the dataname dataset. If FALSE, arm_var levels are set to those used in the
parentname dataset. If dataname and parentname are the same, then drop_arm_levels is set to TRUE and
user input for this parameter is ignored.
(string)
used to replace all NA or empty values
in character or factor variables in the data. Defaults to "<Missing>". To set a
default na_level to apply in all modules, run set_default_na_str("new_default").
(character)
label to use for new column SMQ created by tern::h_stack_by_baskets().
(character)
names of the selected standardized/customized queries variables.
(character)
the variable name for subject id.
(basic_table_args) optional
object created by teal.widgets::basic_table_args()
with settings for the module table. The argument is merged with option teal.basic_table_args and with default
module arguments (hard coded in the module body).
For more details, see the vignette: vignette("custom-basic-table-arguments", package = "teal.widgets").
tm_t_smq()