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

In daattali/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.

daattali/ddpcr documentation built on March 27, 2024, 6:50 a.m.