estimate_nclust_given_graph: Estimate number of clusters for a similarity matrix

In metasnf: Meta Clustering with Similarity Network Fusion

Estimate number of clusters for a similarity matrix

Description

Calculate eigengap and rotation-cost estimates of the number of clusters to use when clustering a similarity matrix. This function was adapted from SNFtool::estimateClustersGivenGraph, but scales up the Laplacian operator prior to eigenvalue calculations to minimize the risk of floating point-related errors.

Usage

estimate_nclust_given_graph(W, NUMC = 2:10)

Arguments

W	Similarity matrix to calculate number of clusters for.
NUMC	Range of cluster counts to consider among when picking best number of clusters.

Value

A list containing the top two eigengap and rotation-cost estimates for the number of clusters in a given similarity matrix.

Examples

input_dl <- data_list(
    list(gender_df, "gender", "demographics", "categorical"),
    list(diagnosis_df, "diagnosis", "clinical", "categorical"),
    uid = "patient_id"
)

sc <- snf_config(input_dl, n_solutions = 1)
sol_df <- batch_snf(input_dl, sc, return_sim_mats = TRUE)
sim_mat <- sim_mats_list(sol_df)[[1]]
estimate_nclust_given_graph(sim_mat)

metasnf documentation built on April 3, 2025, 5:40 p.m.