anndataToGiotto

Converts a spatial anndata (e.g. scanpy) .h5ad file into a Giotto object

anndataToGiotto(
  anndata_path,
  metadata_cols = c("total_counts", "pct_counts_mt"),
  instructions = NULL,
  ...
)

Arguments

anndata_path

path to the .h5ad file

metadata_cols

metadata columns to include

instructions

giotto instructions

...

additional parameters to createGiottoObject

Value

Giotto object

Details

Function in beta. Converts a .h5ad file into a Giotto object.