Input/Output

Backed AnnData objects

AnnData(*, filename[, X, obs, var, obsm, ...])	An annotated data matrix.
AnnDataSet(adatas, *, filename[, add_key, ...])	Similar to AnnData, AnnDataSet contains annotations of observations obs (obsm, obsp), variables var (varm, varp), and unstructured annotations uns.

AnnData IO

read(filename[, backed, backend])	Read .h5ad-formatted hdf5 file.
read_mtx(mtx_file, *[, obs_names, ...])	Read Matrix Market file.
read_10x_mtx(path[, file, prefix])	Read 10x-Genomics-formatted mtx directory.
read_dataset(filename, *[, ...])	Read AnnDataSet object.
AnnData.write(filename, backend)	Write .h5ad-formatted hdf5 file.
AnnData.subset([obs_indices, var_indices, ...])	Subsetting the AnnData object.
AnnData.copy(filename, backend)	Copy the AnnData object.
AnnDataSet.subset([obs_indices, ...])	Subsetting the AnnDataSet object.