plotBPlot {MetaNeighbor}

R Documentation

Plot Bean Plot, showing how replicability of cell types depends on gene sets.

Description

Plot Bean Plot, showing how replicability of cell types depends on gene sets.

Usage

plotBPlot(nv_mat, hvg_score = NULL, cex = 1)

Arguments

nv_mat	A rectangular AUROC matrix as returned by MetaNeighbor, where each row is a gene set and each column is a cell type.
hvg_score	Named vector with AUROCs obtained from a set of Highly Variable Genes (HVGs). The names must correspond to cell types from nv_mat. If specified, the HVG score is highlighted in red.
cex	Size factor for row and column labels.

Examples

data("mn_data")
data("GOmouse")
library(SummarizedExperiment)
AUROC_scores = MetaNeighbor(dat = mn_data,
                            experiment_labels = as.numeric(factor(mn_data$study_id)),
                            celltype_labels = metadata(colData(mn_data))[["cell_labels"]],
                            genesets = GOmouse,
                            bplot = FALSE)
plotBPlot(AUROC_scores)

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