cluster_sc3_df_fn: Create a dataframe of SC3 clusters for a selected number of...

In bioinfocz/scdrake: A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like toolkit for R language

Create a dataframe of SC3 clusters for a selected number of clusters.

Description

This function just extracts cell-cluster membership from the cluster_sce_sc3 object and generates a cluster stability plots.

Usage

cluster_sc3_df_fn(cluster_sce_sc3, sc3_k, is_integration)

Arguments

cluster_sce_sc3	(input target) A SingleCellExperiment object with calculated SC3 clustering.
sc3_k	A numeric vector: numbers of clusters for SC3.
is_integration	A logical scalar: if TRUE, clusterings will be named as ⁠cluster_int_*⁠, otherwise ⁠cluster_*⁠.

Value

A tibble whose columns are mostly self-explanatory, except the data column, which is of list type and contains an another tibble with cluster_stability_plot column holding a ggplot object returned from SC3::sc3_plot_cluster_stability().

bioinfocz/scdrake documentation built on Jan. 29, 2024, 10:24 a.m.