In lshen1/drexplorer2: Dose-response Explorer2

knitr::opts_chunk$set(
  message = FALSE,
  digits = 3,
  collapse = TRUE,
  comment = "#>"
  )
options(digits = 3)

Sometimes replicated viability assays are performed. In such case, it is useful to examine if the experiments are reproducible.

A good metric is the Concordance Correlation Coefficient (CCC) that captures both the location shift as well as scale shift between the replicates. The plotCCC function can be used to compute CCC and visualize the replicated data.

library(drexplorer2)

set.seed(100)
r1 <- runif(28)
r2 <- r1+rnorm(28, 0, 0.1)
ccc <- plotCCC(r1, r2,
               xlab = 'Simulated response, replicate 1',
               ylab = 'Simulated response, replicate 2')
ccc

Here we have simulated two response vectors and calculate CCC. The computed CCC value is r round(ccc['ccc'], 3), location shift is r round(ccc['l_shift'], 3), scale shift is r round(ccc['s_shift'], 3), Pearson correlation is r round(ccc['corr'], 3).

lshen1/drexplorer2 documentation built on June 2, 2020, 9:27 p.m.