addTranslatedMetadata: Add Translated Metadata to a Seurat Object

In vertesy/Seurat.utils: Seurat.utils - utility functions for Seurat

Add Translated Metadata to a Seurat Object

Description

This function translates a specified metadata vector in a Seurat object using a named vector of old and new values and adds it to the Seurat object with a specified suffix. The function also generates UMAP plots for the new metadata.

Usage

addTranslatedMetadata(
  obj = combined.obj,
  orig.ident = "RNA_snn_res.0.4",
  translation_as_named_vec,
  new_col_name = substitute_deparse(translation_as_named_vec),
  suffix = NULL,
  plot = F,
  ...
)

Arguments

obj	A Seurat object to be updated. Default: combined.obj.
orig.ident	A character string specifying the original metadata to be translated. Default: "RNA_snn_res.0.4".
translation_as_named_vec	A named vector where names are old values and values are new translations. Default: None.
new_col_name	A character string specifying the name of the new metadata column. Default: "translation_as_named_vec".
suffix	A character string specifying the suffix for the new metadata column name. Default: ".".
plot	A logical indicating whether to plot the UMAP for the new metadata. Default: FALSE.

Value

An updated Seurat object.

vertesy/Seurat.utils documentation built on Dec. 4, 2024, 5:20 p.m.