Package index • anndata.claude

Core object

AnnData(): Annotated data matrix
dim(<AnnData>) dimnames(<AnnData>) length(<AnnData>) Ops(<AnnData>): Base R generics for AnnData
format(<AnnData>) print(<AnnData>): Format and print an AnnData object
as_array(): Mark a vector as an array

h5ad files

read_h5ad() write_h5ad(): Read and write h5ad files

zarr stores

read_zarr() write_zarr(): Read and write zarr stores

Backed and lazy reading

sparse_dataset(): Handle on a sparse matrix on disk
read_lazy(): Read an AnnData lazily
read_elem_lazy(): Read an Element lazily

Concatenation

concat(): Concatenate AnnData objects

Other formats

read_text() read_csv(): Read text and csv files
read_mtx(): Read a Matrix Market file
read_umi_tools(): Read a umi_tools count table
read_hdf(): Read an HDF5 file with a data matrix
read_excel(): Read an Excel sheet with a data matrix
write_csvs(): Write annotations and uns to csv files

Settings and conditions

anndata_settings local_anndata_settings() with_anndata_settings(): Package settings