I have a Smart-seq2 scRNA-seq dataset with multiple samples.
However, I just hope to check whether the resolution parameter is suitable or not for the whole dataset rather than each sample. So I use orig.ident (all are same) in "samples" parameter.
I use rogue as follow:
rogue(seurat@assays$RNA@data, labels = seurat$seurat_clusters, samples = seurat$orig.ident, platform = "full-length", span = 0.5)
Hello,
I have a Smart-seq2 scRNA-seq dataset with multiple samples. However, I just hope to check whether the resolution parameter is suitable or not for the whole dataset rather than each sample. So I use orig.ident (all are same) in "samples" parameter. I use rogue as follow:
rogue(seurat@assays$RNA@data, labels = seurat$seurat_clusters, samples = seurat$orig.ident, platform = "full-length", span = 0.5)Is it correct ?