Data Readers

BED files

read_bed(file_name)

Read a BED file into a glue Data object.

BigWig files

read_bigwig(file_name)

Read a BigWig file into a glue Data object.

AnnData files

read_anndata(file_name[, skip_dialog, ...])

Use AnnData to read a single-cell type data file into three linked glue Data objects.

Spaceranger output folders

read_spaceranger_directory(filename, **kwargs)

Read in the data as an anndata object Read in the hires image Convert pixel locations Modify the obs file to have the locations

GeoJSON files

read_geojson(filename)

OpenSlide Image Files

read_open_slide_as_zarr(filename)

Read an OpenSlide compatible image using napari-lazy-openslide to make it look like a OME-Zarr

OME-Zarr Image Files

read_ome_zarr(filename)

Read an OME-Zarr file into a glue MultiResolutionData object.

Tifffile Image Files

read_tifffile_as_zarr(filename)

Read TIFF-like files as Zarr using tifffile