Entering edit mode
2.3 years ago
Skamboj
•
0
Can someone please help explain what the Obs_name represents?
I exported the anndata matrix (h5ad) and attempted to transform it to the Seurat object using something similar to the following:
exprs <- t(adata$X)
colnames(exprs) <- adata$obs_names$to_list()
rownames(exprs) <- adata$var_names$to_list()
# Create the Seurat object
seurat <- CreateSeuratObject(exprs)
# Set the expression assay
seurat <- SetAssayData(seurat, "data", exprs)
# Add observation metadata
seurat <- AddMetaData(seurat, adata$obs)
# Add fetaure metadata
seurat[["RNA"]][["n_cells"]] <- padata$var["n_cells"]
I then ran the following in R
VlnPlot(seurat, features = c("nFeature_RNA", "nCount_RNA", "percent.mt"), ncol = 3)
Now my x-axis seems to be using obs_name and I am not 100% sure what it represents