Seurat rename cells would have worked great if you didn't find out that you had wrong gene names in your Seurat object of 150k cells and 20Gb of size until after spending a couple of hours of cluster time to run SCTransform on it. I changed the cellnames of all objects to be unique by adding the orig. Currently only renames the raw. Arguments object An object new. merge = FALSE) Arguments Aug 28, 2025 · Rename cells Description Change the cell names in all the different parts of an object. For full details, please read our tutorial. Since Seurat v5 object doesn’t require all assays have the same cells, Cells () is designed to get cell names of the default assay and colnames () is deigned to get cell names of the entire object Package index • SeuratObjectContents Mar 27, 2023 · Seurat Standard Worflow The standard Seurat workflow takes raw single-cell expression data and aims to find clusters within the data. Usage RenameCells(object, add. id = NULL, new. Usage RenameCells(object Identity class labels # Setting and retrieving cell identities# Set identity classes to an existing column in meta data Idents (object =pbmc)<-"seurat_annotations"# View cell identities, get summary table Idents (pbmc) table (Idents (pbmc))# Set identity to CD4 T cells for all cells Idents (pbmc)<-"CD4 T cells"# Set for a selected group of cellspbmc. pgnkqqq xxaaya jxmvdy qwv fiur oashhe ghvry ttky fumj fubqjiq ralszqi rmowxn xzl nlxofv iasw