annbatch.write_sharded

annbatch.write_sharded(group, adata, *, sparse_chunk_size=32768, sparse_shard_size=134217728, dense_chunk_size=1024, dense_shard_size=4194304, compressors=(BloscCodec(_tunable_attrs={'typesize'}, typesize=1, cname=<BloscCname.lz4: 'lz4'>, clevel=3, shuffle=<BloscShuffle.shuffle: 'shuffle'>, blocksize=0), ), key=None)

Write a sharded zarr store from a single AnnData object.

Parameters:

group Group

The destination group, must be zarr v3

adata AnnData

The source anndata object

sparse_chunk_size int (default: 32768)

Chunk size of indices and data inside a shard.

sparse_shard_size int (default: 134217728)

Shard size i.e., number of elements in a single sparse data or indices file.

dense_chunk_size int (default: 1024)

Number of obs elements per dense chunk along the first axis

dense_shard_size int (default: 4194304)

Number of obs elements per dense shard along the first axis

compressors Iterable[BytesBytesCodec] (default: (BloscCodec(_tunable_attrs={'typesize'}, typesize=1, cname=<BloscCname.lz4: 'lz4'>, clevel=3, shuffle=<BloscShuffle.shuffle: 'shuffle'>, blocksize=0),))

The compressors to pass to zarr.

key str | None (default: None)

The key to which this object should be written - by default the root, in which case the entire store (not just the group) is cleared first.