plot_reduced_dim_scExp_CNA {ChromSCape} | R Documentation |
Plot UMAP colored by Gain or Loss of cytobands
plot_reduced_dim_scExp_CNA(scExp, cytoBand)
scExp |
A SingleCellExperiment with "gainOrLoss_cytoBand" reducedDim
slot filled. See |
cytoBand |
Which cytoBand to color cells by |
Plot the gains/lost of the cytoband overlayed on the epigenetic UMAP.
data("scExp") scExp = calculate_CNA(scExp, control_samples = unique(scExp$sample_id)[1], ref_genome="hg38", quantiles_to_define_gol = c(0.05,0.95)) plot_reduced_dim_scExp_CNA(scExp, get_most_variable_cyto(scExp)$cytoBand[1])