Index

_

__init__() (bioio.BioImage method), [1] (bioio.DimensionNames method) (bioio.Dimensions method) (bioio.PhysicalPixelSizes method) (bioio.Scale method) (bioio.StandardMetadata method) (bioio.Writer method)

A

ArrayLike (in module bioio)

ArrayLikeReader (class in bioio.array_like_reader) ArrayLikeReaderMetadata (class in bioio.array_like_reader)

B

binning (bioio.StandardMetadata attribute) BioImage (class in bioio), [1], [2] (class in bioio.bio_image) bioio module bioio.array_like_reader module

bioio.bio_image module bioio.ome_utils module bioio.plugins module bioio.writers module

C

C (bioio.Scale attribute) Channel (bioio.DimensionNames attribute) channel_names (bioio.bio_image.BioImage property) (bioio.BioImage property) check_type() (in module bioio.plugins) column (bioio.StandardMetadata attribute)

current_resolution_level (bioio.bio_image.BioImage property) (bioio.BioImage property) current_scene (bioio.bio_image.BioImage property) (bioio.BioImage property) current_scene_index (bioio.bio_image.BioImage property) (bioio.BioImage property)

D

dask_data (bioio.bio_image.BioImage property) (bioio.BioImage property) data (bioio.bio_image.BioImage property) (bioio.BioImage property) determine_plugin() (bioio.bio_image.BioImage static method) (bioio.BioImage static method) DimensionNames (class in bioio), [1]

Dimensions (class in bioio), [1] dimensions_present (bioio.StandardMetadata attribute) dims (bioio.bio_image.BioImage property) (bioio.BioImage property) dtype (bioio.bio_image.BioImage property) (bioio.BioImage property) dtype_to_ome_type() (in module bioio.ome_utils) dump_plugins() (in module bioio.plugins)

E

entrypoint (bioio.plugins.PluginEntry attribute)

error (bioio.plugins.PluginSupport attribute)

F

FIELD_LABELS (bioio.StandardMetadata attribute)

G

generate_ome_channel_id() (in module bioio.ome_utils) generate_ome_image_id() (in module bioio.ome_utils) get_array_like_plugin() (in module bioio.plugins) get_dask_stack() (bioio.bio_image.BioImage method) (bioio.BioImage method) get_dependency_version_range_for_distribution() (in module bioio.plugins) get_image_dask_data() (bioio.bio_image.BioImage method) (bioio.BioImage method) get_image_data() (bioio.bio_image.BioImage method) (bioio.BioImage method) get_mosaic_tile_position() (bioio.bio_image.BioImage method) (bioio.BioImage method)

get_mosaic_tile_positions() (bioio.bio_image.BioImage method) (bioio.BioImage method) get_plugins() (in module bioio.plugins) get_reader() (bioio.array_like_reader.ArrayLikeReaderMetadata static method) get_stack() (bioio.bio_image.BioImage method) (bioio.BioImage method) get_supported_extensions() (bioio.array_like_reader.ArrayLikeReaderMetadata static method) get_xarray_dask_stack() (bioio.bio_image.BioImage method) (bioio.BioImage method) get_xarray_stack() (bioio.bio_image.BioImage method) (bioio.BioImage method)

I

image_size_c (bioio.StandardMetadata attribute) image_size_t (bioio.StandardMetadata attribute) image_size_x (bioio.StandardMetadata attribute) image_size_y (bioio.StandardMetadata attribute) image_size_z (bioio.StandardMetadata attribute) imaged_by (bioio.StandardMetadata attribute) ImageLike (in module bioio)

imaging_datetime (bioio.StandardMetadata attribute) imread() (in module bioio.bio_image) imread_dask() (in module bioio.bio_image) imread_xarray() (in module bioio.bio_image) imread_xarray_dask() (in module bioio.bio_image) insert_sorted_by_timestamp() (in module bioio.plugins) items() (bioio.Dimensions method)

M

MetaArrayLike (in module bioio) metadata (bioio.bio_image.BioImage property) (bioio.BioImage property) (bioio.plugins.PluginEntry attribute) module bioio bioio.array_like_reader bioio.bio_image bioio.ome_utils bioio.plugins bioio.writers

mosaic_tile_dims (bioio.bio_image.BioImage property) (bioio.BioImage property) MosaicTile (bioio.DimensionNames attribute)

O

objective (bioio.StandardMetadata attribute) ome_metadata (bioio.bio_image.BioImage property) (bioio.BioImage property)

ome_to_numpy_dtype() (in module bioio.ome_utils) order (bioio.Dimensions property)

P

PathLike (in module bioio) physical_pixel_sizes (bioio.array_like_reader.ArrayLikeReader property) (bioio.bio_image.BioImage property) (bioio.BioImage property) PhysicalPixelSizes (class in bioio), [1] pixel_size_x (bioio.StandardMetadata attribute)

pixel_size_y (bioio.StandardMetadata attribute) pixel_size_z (bioio.StandardMetadata attribute) plugin_feasibility_report() (in module bioio), [1] (in module bioio.plugins) PluginEntry (class in bioio.plugins) PluginSupport (class in bioio.plugins) position_index (bioio.StandardMetadata attribute)

R

reader (bioio.bio_image.BioImage property) (bioio.BioImage property) resolution_level_dims (bioio.bio_image.BioImage property) (bioio.BioImage property)

resolution_levels (bioio.bio_image.BioImage property) (bioio.BioImage property) row (bioio.StandardMetadata attribute)

S

Samples (bioio.DimensionNames attribute) save() (bioio.bio_image.BioImage method) (bioio.BioImage method) (bioio.Writer static method) scale (bioio.bio_image.BioImage property) (bioio.BioImage property) Scale (class in bioio), [1] scenes (bioio.array_like_reader.ArrayLikeReader property) (bioio.bio_image.BioImage property) (bioio.BioImage property) set_resolution_level() (bioio.bio_image.BioImage method) (bioio.BioImage method)

set_scene() (bioio.bio_image.BioImage method) (bioio.BioImage method) shape (bioio.bio_image.BioImage property) (bioio.BioImage property) (bioio.Dimensions property) SpatialX (bioio.DimensionNames attribute) SpatialY (bioio.DimensionNames attribute) SpatialZ (bioio.DimensionNames attribute) standard_metadata (bioio.bio_image.BioImage property) (bioio.BioImage property) StandardMetadata (class in bioio), [1] supported (bioio.plugins.PluginSupport attribute)

T

T (bioio.Scale attribute) Time (bioio.DimensionNames attribute) time_interval (bioio.bio_image.BioImage property) (bioio.BioImage property) TimeInterval (in module bioio)

timelapse (bioio.StandardMetadata attribute) timelapse_interval (bioio.StandardMetadata attribute) timestamp (bioio.plugins.PluginEntry attribute) to_dict() (bioio.StandardMetadata method) total_time_duration (bioio.StandardMetadata attribute)

W

Writer (class in bioio), [1]

X

X (bioio.PhysicalPixelSizes attribute) (bioio.Scale attribute) xarray_dask_data (bioio.bio_image.BioImage property) (bioio.BioImage property)

xarray_data (bioio.bio_image.BioImage property) (bioio.BioImage property)

Y

Y (bioio.PhysicalPixelSizes attribute) (bioio.Scale attribute)

Z

Z (bioio.PhysicalPixelSizes attribute) (bioio.Scale attribute)