has_signif_negative_cluster: Does a well have a statistically significant number of...

In ddpcr: Analysis and Visualization of Droplet Digital PCR in R and on the Web

Does a well have a statistically significant number of negative droplets?

Description

Classify a well as having a significant negative cluster (eg. a mutant well) or not using a binomial test.

We can call a well as mutant if it is statistically significantly more than 1 mutant drops, then the mutant frequency is 1.4 significantly more than 1 P(x >= 7) = 1 - P(x <= 7) + P(x = 7) = 1 - pbinom(7, 500, .01) + dbinom(7, 500, .01) = 0.237 > 0.01 So not statistically significantly enough, so we say it's a wildtype well. But if there are 5000 drops and 70 mutant drops (same 1.4 with higher absolute numbers), then P(x >= 70) = 1 - pbinom(70, 5000, .01) + dbinom(70, 5000, .01) = 0.004 So this is indeed significant, and this well would be deemed mutant.

Usage

has_signif_negative_cluster(plate, neg, pos)

Arguments

plate	A ddPCR plate
neg	Number of negative (or mutant) drops
pos	Number of positive (or wildtype) drops

Value

TRUE if the number of negative drops is statistically significant, FALSE otherwise.

ddpcr documentation built on Aug. 21, 2023, 1:07 a.m.