plot_volcano {gimap}R Documentation

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)


[Package gimap version 1.1.1 Index]