VariantPlot: Plot strand concordance vs. VMR

In Signac: Analysis of Single-Cell Chromatin Data

Plot strand concordance vs. VMR

Description

Plot the Pearson correlation between allele frequencies on each strand versus the log10 mean-variance ratio for the allele.

Usage

VariantPlot(
  variants,
  min.cells = 2,
  concordance.threshold = 0.65,
  vmr.threshold = 0.01
)

Arguments

variants	A dataframe containing variant information. This should be computed using IdentifyVariants
min.cells	Minimum number of high-confidence cells detected with the variant for the variant to be displayed.
concordance.threshold	Strand concordance threshold
vmr.threshold	Mean-variance ratio threshold

Signac documentation built on Sept. 11, 2024, 9:30 p.m.