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Description
I am having issue running the Single R , not sure why I am getting the error. Please help
seurat_integrated
An object of class Seurat
51866 features across 54453 samples within 3 assays
Active assay: RNA (24468 features, 0 variable features)
2 layers present: data, counts
2 other assays present: SCT, integrated
2 dimensional reductions calculated: pca, umap
ref <- celldex::HumanPrimaryCellAtlasData()
seurat_integrated_counts <- GetAssayData(seurat_integrated, layer = 'counts')
pred <- SingleR(test = seurat_integrated_counts,
ref = ref,
labels = ref$label.main)
pred
ERROR
Error in SingleR(test = seurat_integrated_counts, ref = ref, labels = ref$label.main) : argument "sc_data" is missing, with no default
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