Create Quality control plots

[jindalk]

Is there a way to create quality control plots like these from an ArchR object? I tried the ggPoint function but wasn't sure how to overlay density colors. https://www.archrproject.com/bookdown/per-cell-quality-control.html

[rcorces]

This is the code used to make the plot you're talking about:

ArchR/R/CreateArrow.R

Lines 519 to 532 in 968e442

	gg <- ggPoint(
	x = pmin(log10(Metadata$nFrags), 5) + rnorm(length(Metadata$nFrags), sd = 0.00001),
	y = Metadata$TSSEnrichment + rnorm(length(Metadata$nFrags), sd = 0.00001),
	colorDensity = TRUE,
	xlim = c(2.5, 5),
	ylim = c(0, max(Metadata$TSSEnrichment) * 1.05),
	baseSize = 6,
	continuousSet = "sambaNight",
	xlabel = "Log 10 (Unique Fragments)",
	ylabel = "TSS Enrichment",
	title = ggtitle,
	rastr = TRUE) +
	geom_hline(yintercept=filterTSS, lty = "dashed", size = 0.25) +
	geom_vline(xintercept=log10(filterFrags), lty = "dashed", size = 0.25)