reconcileAliquots: Checks if there are unequal aliquots for a...

In NateByers/Reconcile: Functions for reconciling study site data with biorepository database

Description

This function helps you determine if the same number of aliquots for a particular subject/visit/specimen are in the site data and the biorepository data.

Usage

reconcileAliquots(repository.data, site.data, repo.subject.column,
  repo.visit.column, repo.specimen.column, site.subject.column,
  site.visit.column, site.specimen.column)

Arguments

repository.data	data.frame of repository data with columns that will provide unique rows of interest
site.data	data.frame of site data with columns that will provide unique rows of interest
repo.subject.column	Column name of subject IDs in repository data.frame
repo.visit.column	Column name of visit in repository data.frame
repo.specimen.column	Column name of specimen in repository data.frame
site.subject.column	Column name of subject IDs in site data.frame
site.visit.column	Column name of visit in repository data.frame
site.specimen.column	Column name of specimen in site data.frame

Value

A data.frame with column names subject, visit, specimen, repository_aliquots, and site_aliquots.

Examples

repository <- data.frame(subject = c(LETTERS[1:5], LETTERS[1:5], LETTERS[1:3]),
                         visit = c(1:5, 1:5, 1:3),
                         specimen = c(rep("blood", 5), rep("DNA", 5), "blood", "blood", "DNA"),
                         stringsAsFactors = FALSE)

site <- data.frame(patno = c(LETTERS[2:6], LETTERS[2:6]), clinevent = c(2:6, 2:6),
                   sample = c("RNA", rep("blood", 4), "Serum", rep("DNA",  4)),
                   stringsAsFactors = FALSE)

reconcileAliquots(repository.data = repository, site.data = site, repo.subject.column = "subject",
                  repo.visit.column = "visit", repo.specimen.column = "specimen",
                  site.subject.column = "patno", site.visit.column = "clinevent",
                  site.specimen.column = "sample")

NateByers/Reconcile documentation built on Nov. 21, 2021, 4:12 p.m.