Index

A

add() (tiledbsoma.SOMACollection method) add_layer_from_matrix_and_dim_values() (tiledbsoma.AssayMatrixGroup method) add_matrix_from_matrix_and_dim_values() (tiledbsoma.AnnotationMatrixGroup method) (tiledbsoma.AnnotationPairwiseMatrixGroup method) add_X_layer() (tiledbsoma.SOMA method) AnnotationDataFrame (class in tiledbsoma)

AnnotationMatrix (class in tiledbsoma) AnnotationMatrixGroup (class in tiledbsoma) AnnotationPairwiseMatrixGroup (class in tiledbsoma) AssayMatrix (class in tiledbsoma) AssayMatrixGroup (class in tiledbsoma) attr_names() (tiledbsoma.TileDBArray method) attr_names_to_types() (tiledbsoma.TileDBArray method)

C

concat() (tiledbsoma.SOMASlice class method) create_empty_array_for_csr() (tiledbsoma.UnsArray method)

create_unless_exists() (tiledbsoma.TileDBGroup method) csc() (tiledbsoma.AssayMatrix method) csr() (tiledbsoma.AssayMatrix method)

D

debug() (in module tiledbsoma.logging) describe_ann_file() (in module tiledbsoma.util_ann) df() (tiledbsoma.AnnotationDataFrame method) (tiledbsoma.AnnotationMatrix method) (tiledbsoma.AssayMatrix method)

dim_names() (tiledbsoma.TileDBArray method) dim_names_to_types() (tiledbsoma.TileDBArray method) dim_select() (tiledbsoma.AnnotationDataFrame method) (tiledbsoma.AnnotationMatrix method) (tiledbsoma.AssayMatrix method) dim_slice() (tiledbsoma.SOMA method)

E

ETATracker (class in tiledbsoma.util)

exists() (tiledbsoma.TileDBArray method) (tiledbsoma.TileDBGroup method)

F

find_unique_obs_values() (tiledbsoma.SOMACollection method) find_unique_var_values() (tiledbsoma.SOMACollection method) format_elapsed() (in module tiledbsoma.util) from_anndata() (in module tiledbsoma.io) (tiledbsoma.RawGroup method) from_anndata_uns() (tiledbsoma.UnsGroup method) from_dataframe() (tiledbsoma.AnnotationDataFrame method)

from_h5ad() (in module tiledbsoma.io) from_matrix_and_dim_values() (tiledbsoma.AnnotationMatrix method) (tiledbsoma.AssayMatrix method) from_numpy_ndarray() (tiledbsoma.UnsArray method) from_pandas_dataframe() (tiledbsoma.UnsArray method) from_scipy_csr() (tiledbsoma.UnsArray method) from_soma_slice() (tiledbsoma.SOMA class method)

G

get_member_names() (tiledbsoma.TileDBGroup method) get_member_names_to_uris() (tiledbsoma.TileDBGroup method) get_member_uris() (tiledbsoma.TileDBGroup method) get_metadata() (tiledbsoma.TileDBObject method)

get_object_type() (tiledbsoma.TileDBObject method) get_obs_value_counts() (tiledbsoma.SOMA method) get_start_stamp() (in module tiledbsoma.util) get_var_value_counts() (tiledbsoma.SOMA method)

H

has_attr_name() (tiledbsoma.TileDBArray method)

has_attr_names() (tiledbsoma.TileDBArray method) has_metadata() (tiledbsoma.TileDBObject method)

I

ids() (tiledbsoma.AnnotationDataFrame method) info() (in module tiledbsoma.logging) ingest_and_predict() (tiledbsoma.util.ETATracker method) ingest_data_cols_chunked() (tiledbsoma.AssayMatrix method) ingest_data_dense_rows_chunked() (tiledbsoma.AssayMatrix method)

ingest_data_from_csr() (tiledbsoma.UnsArray method) ingest_data_rows_chunked() (tiledbsoma.AssayMatrix method) ingest_data_whole() (tiledbsoma.AssayMatrix method) is_local_path() (in module tiledbsoma.util) is_soma() (in module tiledbsoma.util) is_soma_collection() (in module tiledbsoma.util)

K

keys() (tiledbsoma.AnnotationDataFrame method) (tiledbsoma.AnnotationMatrixGroup method) (tiledbsoma.AnnotationPairwiseMatrixGroup method) (tiledbsoma.AssayMatrixGroup method) (tiledbsoma.SOMACollection method) (tiledbsoma.UnsGroup method)

keyset() (tiledbsoma.AnnotationDataFrame method)

L

log_io() (in module tiledbsoma.logging)

M

metadata() (tiledbsoma.TileDBObject method) metadata_keys() (tiledbsoma.TileDBObject method) module tiledbsoma.logging tiledbsoma.util tiledbsoma.util_ann tiledbsoma.util_tiledb

O

obs_keys() (tiledbsoma.SOMA method)

Q

queries() (tiledbsoma.SOMA class method) query() (tiledbsoma.AnnotationDataFrame method) (tiledbsoma.SOMA method) (tiledbsoma.SOMACollection method)

R

RawGroup (class in tiledbsoma) remove() (tiledbsoma.AnnotationMatrixGroup method) (tiledbsoma.AnnotationPairwiseMatrixGroup method) (tiledbsoma.SOMACollection method)

S

set_metadata() (tiledbsoma.TileDBObject method) shape() (tiledbsoma.AnnotationDataFrame method) (tiledbsoma.AnnotationMatrix method) (tiledbsoma.AssayMatrix method) show_metadata() (tiledbsoma.TileDBArray method) (tiledbsoma.TileDBGroup method)

show_soma_schemas() (in module tiledbsoma.util_tiledb) show_tiledb_group_array_schemas() (in module tiledbsoma.util_tiledb) SOMA (class in tiledbsoma) SOMACollection (class in tiledbsoma) SOMAOptions (class in tiledbsoma) SOMASlice (class in tiledbsoma)

T

tiledb_array_schema() (tiledbsoma.TileDBArray method) TileDBArray (class in tiledbsoma) TileDBGroup (class in tiledbsoma) TileDBObject (class in tiledbsoma) tiledbsoma.logging module tiledbsoma.util module tiledbsoma.util_ann module tiledbsoma.util_tiledb module

to_anndata() (in module tiledbsoma.io) (tiledbsoma.SOMASlice method) to_anndata_raw() (tiledbsoma.RawGroup method) to_csr_matrix() (tiledbsoma.AssayMatrix method) to_dict_of_csr() (tiledbsoma.AnnotationMatrixGroup method) (tiledbsoma.AnnotationPairwiseMatrixGroup method) to_dict_of_matrices() (tiledbsoma.UnsGroup method) to_h5ad() (in module tiledbsoma.io) to_matrix() (tiledbsoma.UnsArray method) triples_to_dense_df() (in module tiledbsoma.util)

U

UnsArray (class in tiledbsoma)

UnsGroup (class in tiledbsoma)

V

var_keys() (tiledbsoma.SOMA method)

W

warning() (in module tiledbsoma.logging)

X

X_and_ids_to_sparse_matrix() (in module tiledbsoma.util)