collapse_to_cluster: From per-cell calls, take highest freq call in each cluster

In rnabioco/clustifyr: Classifier for Single-cell RNA-seq Using Cell Clusters

From per-cell calls, take highest freq call in each cluster

Description

From per-cell calls, take highest freq call in each cluster

Usage

collapse_to_cluster(res, metadata, cluster_col, threshold = 0)

Arguments

res	dataframe of idents, such as output of cor_to_call
metadata	input metadata with tsne or umap coordinates and cluster ids
cluster_col	metadata column for cluster
threshold	minimum correlation coefficent cutoff for calling clusters

Value

new metadata with added columns

Examples

res <- clustify(
    input = pbmc_matrix_small,
    metadata = pbmc_meta,
    cluster_col = "classified",
    ref_mat = cbmc_ref,
    per_cell = TRUE
)

res2 <- cor_to_call(res)

collapse_to_cluster(
    res2,
    metadata = pbmc_meta,
    cluster_col = "classified",
    threshold = 0
)

rnabioco/clustifyr documentation built on April 7, 2024, 3:03 p.m.