Create Contingency Table from Two Cluster Assignments

Generates a contingency table comparing two cluster assignments. The table counts the number of isolates shared between each pair of clusters from the two assignments. Only isolates present in both assignments are considered.

Usage

cluster_contingency_table(clusters1, clusters2)

Arguments

clusters1

A named vector of cluster assignments where names are isolate IDs and values are cluster numbers.

clusters2

A named vector of cluster assignments where names are isolate IDs and values are cluster numbers.

Value

A matrix where rows correspond to clusters in clusters1, columns correspond to clusters in clusters2, and cell values represent the count of shared isolates.