zFactor: Calcualte the Z and Z' factor

In synlet: Hits Selection for Synthetic Lethal RNAi Screen Data

Description

calcualte the Z and Z' factor for each plate.

Usage

zFactor(dat, negativeCon, positiveCon, useMean = TRUE)

Arguments

dat	synthetic lethal RNAi screen data.
negativeCon	the negative control used in the WELL_CONTENT_NAME.
positiveCon	the positive control used in the WELL_CONTENT_NAME.
useMean	use mean to calcualate z factor and z' factor by default; otherwise use median.

Value

A data.frame contains z factor and z' factor

References

Zhang J.H., Chung T.D. & Oldenburg K.R. A simple statistical parameter for use in evaluation and validation of high throughput screening assays. J. Biomol. Screen. B, 4 67-73 (1999). Birmingham,A. et al. (2009) Statistical methods for analysis of high-throughput RNA interference screens. Nat Methods, 6, 569-575.

Examples

zFactor(exampleDat, negativeCon = "scrambled control si1", positiveCon = "PLK1 si1")

Example output

Loading required package: ggplot2
--- number of plates to calculate Z factor: 18---

            zFactor zPrimeFactor
1031121  -10.634216   -41.363166
1031122  -33.619321  -605.067537
1031123  -23.368949   -30.108141
1031124  -32.313887   -14.537706
1031125 -115.069287  -137.874535
1031126  -23.080547   -51.943276
1031127  -49.293309   -38.835471
1031128  -25.421380    -8.518658
1031129  -15.020988   -15.354211
1031613 -123.246876   -11.694868
1031614 -129.970342   -53.187992
1031615  -13.804416   -10.450220
1031616  -17.374272    -8.227728
1031617  -20.928592  -372.572331
1031618  -12.681340   -10.165533
1031619  -38.504120   -59.131019
1031620   -7.181207    -9.518294
1031621 -258.620469   -13.308355

synlet documentation built on Nov. 8, 2020, 6:48 p.m.