clusterings.compare: Compare and visualze multiple clustering assignments

In xu-lab/SINCERA: An R implementation of SINCERA pipeline for processing single-cell RNA-seq data.

Description

Compare and visualze multiple clustering assignments

Usage

clusterings.compare(m, consistency.thresh = 0.5, do.plot = T,
  show.cell = FALSE, bar.width = 1, font.size = 12)

Arguments

m	The data.frame encoding different clustering results. Rows are cells, Columns are clustering results. Column names denote different clustering assignments.
consistency.thresh	For a cell, if less than consistency.thresh percent of its neighbors in clustering A remains in clustering B, the instability of the clustering assignment of the cell will increase
show.cell	If TRUE, show cell names in the plot
bar.width	The width of bar
font.size	The font size of text in the plot

Details

The similarity between two clustering assignments is measured based on the metric proposed in Torres et al., International Journal of Electrical, Computer & Systems Engineer, 2009.

Value

The data frame containing cell clustering assignments and instability scores

xu-lab/SINCERA documentation built on Feb. 3, 2021, 4:19 a.m.