calculate_celltype_prob {scCAN}

calculate_celltype_prob

Description

Calculate clusters and cell types similarity based on the markers.

Usage

calculate_celltype_prob(clt_marker_list, marker_database_list, type = "jacc")

Arguments

clt_marker_list

A list of markers for all cluster.

marker_database_list

A list of markers of all reference cell types.

type

A parameter to select the method to measure cluster and cell type similarity

• jacc - Jaccard index.

• ac - Accuracy.

• f1 - F1 score.

.

Value

A confusion matrix between clusters and cell types. Each cell represents a probabilty of a cluster belongs to a cell type.