Write and Read AdataDict

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Write and Read AdataDict#

This tutorial demonstrates how to write and read an AdataDict to/from disk.

First, build an AdataDict to work with

import anndict as adt
import scanpy as sc

#load an anndata
adata = sc.datasets.pbmc3k_processed()

# Build an AdataDict from this anndata
adata_dict = adt.build_adata_dict(adata, strata_keys=['louvain'])

Write#

write_adata_dict() writes the adata_dict to the specified directory, with each value being written as a separate .h5ad file. In the specified directory, there will also be files (adata_dict.hierarchy.json and adata_dict.db.json) which are used internally by AnnDictionary when reading.

my_path = 'path/to/adata_dict'
adt.write_adata_dict(adata_dict, my_path) # write the AdataDict to disk

Read#

Then read with:

adata_dict = adt.read_adata_dict(my_path) # read the AdataDict from disk
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