calc.seq.depth: Sequencing depth

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

Description

bar plot visualizing sequencing depth

Usage

calc.seq.depth(
  countsTable,
  metadata,
  sample.id = "SampleID",
  print = T,
  save = F
)

Arguments

countsTable	input matrix containing normalized gRNA counts with gRNA ids as row names
metadata	input dataframe containing sample names and other identifiers or data
sample.id	string identifying column name in metadata containing sample IDs
print	logical - do you want to print the plot to plots
save	logical - do you want to save the plot to pdf

See Also

ggplot which this function uses to plot

Examples

y <- matrix(rnorm(100*9, mean = 10, sd = 1),100,9)
colnames(y) <- paste0('sample.',1:9)
metadata <- data.frame(sample = paste0('sample.',1:9), batch = c("A","A","A","B","B","B","C","C","C"))
calc.seq.depth(y)
...

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