plot_volcano: Volcano plot for GI scores

In gimap: Calculate Genetic Interactions for Paired CRISPR Targets

Volcano plot for GI scores

Description

This plot is meant to be functionally equivalent to Fig 5b (for HeLa, equivalent of Fig 3d for PC9). Volcano plot of target-level GI scores Blue points are synthetic lethal paralog GIs with GI < 0.5 and FDR < 0.1; red points are buffering paralog GIs with GI > 0.25 and FDR < 0.1.

Usage

plot_volcano(gimap_dataset, facet_rep = FALSE)

Arguments

gimap_dataset	A special dataset structure that is originally setup using 'setup_data()' and has had gi scores calculated with 'calc_gi()'.
facet_rep	Should the replicates be wrapped with facet_wrap()?

Value

A ggplot2 volcano plot of the target level genetic interaction scores.

Examples

gimap_dataset <- get_example_data("gimap") %>%
  gimap_filter() %>%
  gimap_annotate(cell_line = "HELA") %>%
  gimap_normalize(
    timepoints = "day"
  ) %>%
  calc_gi()

# To plot results
plot_exp_v_obs_scatter(gimap_dataset)
plot_rank_scatter(gimap_dataset)
plot_volcano(gimap_dataset)

gimap documentation built on June 8, 2025, 10:13 a.m.