Generate a venn diagram showing overlap between DE genes.

Usage

plot_deg_venn(x, sample_comparisons, regulation = "up", fill_color = NULL, ...)

Arguments

x: an abject of class parcutils. This is an output of the function run_deseq_analysis().
sample_comparisons: a character vector of length 2 denoting DE comparisons for which venn diagram to plot.
regulation: a character string from up, down, both. If up or down respective gene sets from the sample_comparisons will be used for venn diagram. If both, both up and down will be from each sample_comparisons will be used for venn diagram.
fill_color: an argument pass to the function ggvenn::ggvenn.
...: other arguments pass to the function ggvenn::ggvenn

Value

ggplot

Examples

x <- parcutils:::.get_parcutils_object_example()
#> ℹ Running DESeq2 ...
#> converting counts to integer mode
#> Warning: some variables in design formula are characters, converting to factors
#> estimating size factors
#> estimating dispersions
#> gene-wise dispersion estimates
#> mean-dispersion relationship
#> final dispersion estimates
#> fitting model and testing
#> ✔ Done.
#> ℹ Summarizing DEG ...
#> ✔ Done.
sample_comparisons <- c("treatment1_VS_control","treatment2_VS_control")
plot_deg_venn(x = x, sample_comparisons = sample_comparisons , regulation = "up")

plot_deg_venn(x = x, sample_comparisons = sample_comparisons , regulation = "down")

plot_deg_venn(x = x, sample_comparisons = sample_comparisons , regulation = "both")