Obtain overall percentage overlap between DEGs from bulk data (DE across all tissues) and various scRNA-seq datasets, across all cell types

prop_bulk_DEGs_sc(
  bulkDE,
  inpath,
  range_downsampled,
  bulk_cutoff = 0.9,
  pvalue = 0.05,
  fontsize_axislabels = 12,
  fontsize_axisticks = 9,
  fontsize_title = 14,
  fontsize_legendlabels = 9,
  fontsize_legendtitle = 9,
  plot_title = "placeholder"
)

Arguments

bulkDE: DGE analysis output for a bulk RNA-seq dataset: rows (rownames) should be the genes, columns should be tissues, and entries should be significance levels
inpath: path storing the down-sampled DGE analysis outputs for each dataset
range_downsampled: vector or list containing values which the data will be downsampled at, in ascending order
bulk_cutoff: percentage (proportion), specified so that we select DEGs common across >=bulk_cutoff of the tissues in the Bulk dataset
pvalue: the cut-off p-value used to select DEGs (for bulk data)
fontsize_axislabels: font size for axis labels in plot
fontsize_axisticks: font size for axis tick labels in plot
fontsize_title: font size for plot title
fontsize_legendlabels: font size for legend labels in plot
fontsize_legendtitle: font size for legend title in plot
plot_title: plot title

Value

plot showing percentage DEGs from bulk data found in each scRNA-seq dataset