dump.clinical.data: Download all tables directly from Labkey for all or a subset...

In fitzgerald-lab/labkey.occams: Download and clean LabKey data

Download all tables directly from Labkey for all or a subset of patients.

Description

Download all tables directly from Labkey for all or a subset of patients.

Usage

dump.clinical.data(
  ocs,
  occams_ids = NULL,
  prefixes = NULL,
  version = "z1",
  outdir = "~/tmp"
)

Arguments

ocs	labkey connection object from connect.to.labkey()
occams_ids	Array of occams identifiers, this is optional. The default returns all patients, better to use get.patients(...) if you want this.
prefixes	Get only tables with the given prefixes. Call 'get.prefixes(ocs)' for a list of only CRF tables.
version	Table version (default 'z1')

Author(s)

skillcoyne

fitzgerald-lab/labkey.occams documentation built on June 12, 2022, 2:02 p.m.