Update metadata for a dataset

Usage

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

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.