filterCounts: Filtration of gRNAs with Low Counts

In christensensm/COMPOSE: Calculation and Visualization of Phenotypic CRISPR Screens

Description

Filtration and visualization of counts

Usage

filterCounts(counts, thresh = 1, minsample.ids = 2)

Arguments

counts	input matrix containing normalized gRNA counts with gRNA ids as row names
thresh	numerical cutoff for low counts
minsample.ids	minimum number of samples for which counts must be present per gene

Value

new matrix of filtered counts

Examples

y <- matrix(rnorm(100*9, mean = 10, sd = 1),100,9)
y[seq(1,100,10),] <- y[seq(1,100,10),]/20
counts.filtered <- filterCounts(y, thresh = 1, minsample.ids = 3)
...

christensensm/COMPOSE documentation built on Dec. 22, 2020, 3:43 a.m.