Created
June 30, 2020 20:54
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Make a Featureplot style plot using schex from a Seurat object
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feature_schex <- function(seurat_object, | |
gene_ids, | |
label = FALSE, | |
nbins = 150, | |
reduction = "UMAP", | |
assay = "SCT", | |
slot = "data", | |
action = "mean"){ | |
require(Seurat) | |
require(schex) | |
seurat_object <- make_hexbin(seurat_object, nbins = nbins, dimension_reduction = reduction) | |
plot_list <- list() | |
for(gene in gene_ids){ | |
print(gene) | |
schex_plot <- plot_hexbin_feature(seurat_object, type=slot, feature=gene, | |
action= action, xlab="UMAP 1", ylab="UMAP 2", mod = assay, | |
title= gene) + | |
theme_cowplot() + | |
theme(legend.position = "bottom") | |
plot_list[[gene]] <- schex_plot | |
} | |
return(plot_list) | |
} |
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