clinical.derive: Derive analysis variables from clinical data
In tobyjohnson/gtx: Genetics ToolboX

Description Usage Arguments Details Author(s) Examples

Provides a convenience function

1	clinical.derive(datalist, derivations, verbose = TRUE, only)

`datalist`	A list of data frames of clinical data
`derivations`	A data frame of derivation rules
`verbose`	Whether to print progress messages
`only`	Character vector of targets to derive

Read the code or see the examples.

The derivations argument must be a dataframe with the following columns (with the following information in each row): “targets” (a name [or space delimited names] for the derived variable[s]); “types” (the type [or space delimited types] for the derived variable[s]); “deps” (a string with space delimited names of clinical datasets the derivation depends on); “data” (a string with an R language statement to extract a data subset); “fun” (a string with an R language statement of the derivation).

Toby Johnson Toby.x.Johnson@gsk.com

## Not run: 
clindata <- clinical.import("path/to/clinical/export/")
data(derivations.standard)
gxvars <- clinical.derive(clindata, derivations.standard)
summary(gxvars)

## End(Not run)