rand_index: Calculate rand index

In IMB-Computational-Genomics-Lab/scGPS: A complete analysis of single cell subpopulations, from identifying subpopulations to analysing their relationship (scGPS = single cell Global Predictions of Subpopulation)

Description

Comparing clustering results Function for calculating randindex (adapted from the function by Steve Horvath and Luohua Jiang, UCLA, 2003)

Usage

rand_index(tab, adjust = TRUE)

Arguments

tab	a table containing different clustering results in rows
adjust	a logical of whether to use the adjusted rand index

Value

a rand_index value

Author(s)

Quan Nguyen and Michael Thompson, 2018-05-11

Examples

day5 <- day_5_cardio_cell_sample
mixedpop2 <-new_summarized_scGPS_object(ExpressionMatrix = day5$dat5_counts,
GeneMetadata = day5$dat5geneInfo, CellMetadata = day5$dat5_clusters)
cluster_all <-clustering(object=mixedpop2)

rand_index(table(unlist(cluster_all$list_clusters[[1]]), 
cluster_all$cluster_ref))

IMB-Computational-Genomics-Lab/scGPS documentation built on Dec. 6, 2020, 3:20 p.m.