convert comorbidity data frame from matrix

convert matrix of comorbidities into data frame, preserving visit_name information

comorbid_mat_to_df(
  x,
  visit_name = "visit_id",
  stringsAsFactors = getOption("stringsAsFactors")
)

Arguments

x	Matrix of comorbidities, with row and columns names defined
visit_name	Single character string with name for new column in output data frame. Everywhere else, visit_name describes the input data, but here it is for output data.
stringsAsFactors	Single logical value, describing whether the resulting data frame should have strings, e.g. visit_id converted to factor. Default is to follow the current session option. This is identical to the argument used in, among other base functions as.data.frame.

See also

comorbid_df_to_mat

Other ICD data conversion: comorbid_df_to_mat(), convert, decimal_to_short(), long_to_wide(), short_to_decimal(), wide_to_long()

Examples

longdf <- icd_long_data(
  visit_id = c("a", "b", "b", "c"),
  icd9 = as.icd9(c("441", "4240", "443", "441"))
)
mat <- icd9_comorbid_elix(longdf)
class(mat)
#> [1] "matrix" "array" 
typeof(mat)
#> [1] "logical"
rownames(mat)
#> [1] "a" "b" "c"
df.out <- comorbid_mat_to_df(mat)
stopifnot(is.data.frame(df.out))
# output data frame has a factor for the visit_name column
stopifnot(identical(rownames(mat), as.character(df.out[["visit_id"]])))
df.out[, 1:4]
#>   visit_id   CHF Arrhythmia Valvular
#> 1        a FALSE      FALSE    FALSE
#> 2        b FALSE      FALSE     TRUE
#> 3        c FALSE      FALSE    FALSE
# when creating a data frame like this, stringsAsFactors uses
# the system-wide option you may have set e.g. with
# options("stringsAsFactors" = FALSE).
is.factor(df.out[["visit_id"]])
#> [1] FALSE