calcPlateQuality: Calculate plate quality

In dmattek/hcs-package:

Description

Calculates z-factor and z-prime of a measurment. Requires the actual measurment, negative and positive controls.

Usage

calcPlateQuality(in.dt, in.col.meas, in.col.type, in.well.type,
  in.screen = c("activation", "inhibition"))

Arguments

in.dt	Input data table. Rows correspond to well measurements. Has to consist of at least 2 columns: value of the measurement in a well, description of well types (e.g.'CTRL neg', 'CTRL pos', 'Compounds'.)
in.col.meas	Name of the column holding the measurement
in.col.type	Name of the column holding the well type
in.well.type	Named list with strings that describe wells with negative and positive controls, and compounds. The list has to have the following names of elements: list(ctrl.neg = 'CTRL neg', ctrl.pos = 'CTRL pos', compounds = 'Compounds')
in.screen	String with either of c('activation', 'inhibition')

Value

List with two items, zfactor and zprime

Examples

require(data.table)
l.well = list(compounds = 'Compounds', ctrl.neg = 'CTRL neg', ctrl.pos = 'CTRL pos')
dt = data.table(meanInt = c(rnorm(80, 2, 1),
                            rnorm(10, 0, 1),
                            rnorm(10, 2, 1)),
                wellType = c(rep(l.well$compounds, 80),
                             rep(l.well$ctrl.neg, 10),
                             rep(l.well$ctrl.pos, 10)))
calcPlateQuality(dt, 'meanInt', 'wellType', l.well, 'act')

dmattek/hcs-package documentation built on May 16, 2019, 7:24 a.m.