update_metadata: Update metadata for a dataset

In tanaylab/MCView: A Shiny App for Metacell Analysis

Update metadata for a dataset

Description

Update metadata for a dataset

Usage

update_metadata(
  project,
  dataset,
  metadata = NULL,
  metadata_fields = NULL,
  anndata_file = NULL,
  overwrite = FALSE
)

Arguments

project	path to the project
dataset	name for the dataset, e.g. "PBMC". The name of the dataset can only contain alphanumeric characters, dots, dashes and underscores.
metadata	can be either a data frame with a column named "metacell" with the metacell id and other metadata columns or a name of a delimited file which contains such data frame. See metadata_fields for other details.
metadata_fields	names of fields in the anndata object$obs which contains metadata for each metacell. The fields should can be either numeric or categorical. You can use cell_metadata_to_metacell to convert from categorical to a numeric score (e.g. by using fraction of the category). You can use 'all' in order to import all the fields of the anndata object.
anndata_file	path to h5ad file which contains the output of metacell2 pipeline (metacells python package) or a loaded anndata object of the same format.
overwrite	overwrite all existing metadata. If FALSE - would override only existing metadata fields.

tanaylab/MCView documentation built on June 1, 2025, 8:08 p.m.