DAF 0.2.0-dev.1 Documentation

• README
  • Motivation
  • Usage
  • Installation
  • License (MIT)
• History
  • 0.1.0
  • 0.2.0 (WIP)
• DAF API
  • daf.example
    • DAF_EXAMPLE_PATH
  • daf.access
    • daf.access.readers
      • DafReader
        • DafReader.name
        • DafReader.base
        • DafReader.derived
        • DafReader.chain
        • DafReader.as_reader()
        • DafReader.description()
        • DafReader.verify_has()
        • DafReader.has_data()
        • DafReader.item_names()
        • DafReader.has_item()
        • DafReader.get_item()
        • DafReader.axis_names()
        • DafReader.has_axis()
        • DafReader.axis_size()
        • DafReader.axis_entries()
        • DafReader.axis_indices()
        • DafReader.axis_index()
        • DafReader.data1d_names()
        • DafReader.has_data1d()
        • DafReader.get_vector()
        • DafReader.get_series()
        • DafReader.data2d_names()
        • DafReader.has_data2d()
        • DafReader.get_matrix()
        • DafReader.get_frame()
        • DafReader.get_columns()
        • DafReader.view()
      • transpose_name()
    • daf.access.writers
      • DafWriter
        • DafWriter.storage
        • DafWriter.as_reader()
        • DafWriter.set_item()
        • DafWriter.create_axis()
        • DafWriter.set_data1d()
        • DafWriter.set_data2d()
        • DafWriter.create_dense_in_rows()
        • DafWriter.adapter()
        • DafWriter.computation()
      • BackAxis
        • BackAxis.name
        • BackAxis.optional
        • BackAxis.copy_on_error
      • BackData
        • BackData.name
        • BackData.default
        • BackData.optional
        • BackData.overwrite
        • BackData.copy_on_error
      • COMPLETE_DATA
      • computation()
    • daf.access.operations
      • operation()
      • Abs
      • Floor
      • Round
      • Ceil
      • Clip
      • Log
      • Fraction
      • Reformat
        • Reformat.vector_to_vector()
        • Reformat.dense_to_dense()
        • Reformat.dense_to_sparse()
        • Reformat.sparse_to_dense()
        • Reformat.sparse_to_sparse()
      • Densify
      • Sparsify
      • Significant
      • Sum
      • Min
      • Max
      • Mean
      • Var
      • Std
      • Operation
        • Operation.dtype
        • Operation.canonical
      • ElementWise
        • ElementWise.densifies
        • ElementWise.sparsifies
        • ElementWise.nop
        • ElementWise.vector_to_vector()
        • ElementWise.dense_to_dense()
        • ElementWise.dense_to_sparse()
        • ElementWise.sparse_to_dense()
        • ElementWise.sparse_to_sparse()
      • Reduction
        • Reduction.vector_to_scalar()
        • Reduction.dense_to_vector()
        • Reduction.sparse_to_vector()
      • parse_float_parameter()
      • parse_int_parameter()
      • parse_number_parameter()
      • parse_bool_parameter()
      • float_dtype_for()
  • daf.storage
    • daf.storage.interface
      • StorageReader
        • StorageReader.name
        • StorageReader.as_reader()
        • StorageReader.description()
        • StorageReader.item_names()
        • StorageReader.has_item()
        • StorageReader.get_item()
        • StorageReader.axis_names()
        • StorageReader.has_axis()
        • StorageReader.axis_size()
        • StorageReader.axis_entries()
        • StorageReader.data1d_names()
        • StorageReader.has_data1d()
        • StorageReader.get_data1d()
        • StorageReader.data2d_names()
        • StorageReader.has_data2d()
        • StorageReader.get_data2d()
      • StorageWriter
        • StorageWriter.as_reader()
        • StorageWriter.update()
        • StorageWriter.set_item()
        • StorageWriter.create_axis()
        • StorageWriter.set_vector()
        • StorageWriter.set_matrix()
        • StorageWriter.create_dense_in_rows()
      • prefix()
      • suffix()
    • daf.storage formats
      • daf.storage.memory
        • MemoryStorage
      • daf.storage.files
        • FilesReader
          • FilesReader.path
        • FilesWriter
      • daf.storage.h5fs
        • H5fsReader
          • H5fsReader.group
        • H5fsWriter
      • daf.storage.anndata
        • AnnDataReader
          • AnnDataReader.adata
        • AnnDataWriter
        • storage_as_anndata()
        • anndata_as_storage()
      • daf.storage.none
        • NO_STORAGE
    • daf.storage support
      • daf.storage.chains
        • StorageChain
          • StorageChain.chain
      • daf.storage.views
        • AxisView
          • AxisView.name
          • AxisView.entries
          • AxisView.track
          • AxisView.overwrite
        • StorageView
          • StorageView.base
          • StorageView.cache
          • StorageView.axis_slice_indices()
          • StorageView.exposed_axis()
          • StorageView.exposed_item()
          • StorageView.exposed_data1d()
          • StorageView.exposed_data2d()
          • StorageView.base_axis()
          • StorageView.base_item()
          • StorageView.base_data1d()
          • StorageView.base_data2d()
      • daf.storage.memory_mapping
        • exists_memory_mapped_array()
        • remove_memory_mapped_array()
        • create_memory_mapped_array()
        • open_memory_mapped_array()
        • exists_memory_mapped_sparse()
        • remove_memory_mapped_sparse()
        • write_memory_mapped_sparse()
        • open_memory_mapped_sparse()
        • allow_maximal_open_files()
        • MMAP_CACHE
        • mmap_file()
        • bytes_as_ndarray()
  • daf.typing
    • daf.typing 1D data
      • daf.typing.vectors
        • Vector
        • is_vector()
        • be_vector()
        • as_vector()
      • daf.typing.series
        • is_series()
        • be_series()
    • daf.typing 2D data
      • daf.typing.dense
        • Dense
        • is_dense()
        • be_dense()
        • as_dense()
        • DenseInRows
        • is_dense_in_rows()
        • be_dense_in_rows()
        • DenseInColumns
        • is_dense_in_columns()
        • be_dense_in_columns()
      • daf.typing.sparse
        • Sparse
        • is_sparse()
        • be_sparse()
        • SparseInRows
        • is_sparse_in_rows()
        • be_sparse_in_rows()
        • SparseInColumns
        • is_sparse_in_columns()
        • be_sparse_in_columns()
      • daf.typing.matrices
        • Matrix
        • is_matrix()
        • be_matrix()
        • as_matrix()
        • MatrixInRows
        • is_matrix_in_rows()
        • be_matrix_in_rows()
        • MatrixInColumns
        • is_matrix_in_columns()
        • be_matrix_in_columns()
      • daf.typing.frames
        • Frame
        • is_frame()
        • be_frame()
        • FrameInRows
        • is_frame_in_rows()
        • be_frame_in_rows()
        • FrameInColumns
        • is_frame_in_columns()
        • be_frame_in_columns()
    • daf.typing support
      • daf.typing.unions
        • AnyData
        • Known
        • is_known()
        • be_known()
        • Known1D
        • is_known1d()
        • be_known1d()
        • Known2D
        • is_known2d()
        • be_known2d()
        • Proper
        • is_proper()
        • be_proper()
        • Proper1D
        • is_proper1d()
        • be_proper1d()
        • Proper2D
        • is_proper2d()
        • be_proper2d()
        • ProperInRows
        • is_proper_in_rows()
        • be_proper_in_rows()
        • ProperInColumns
        • is_proper_in_columns()
        • be_proper_in_columns()
      • daf.typing.dtypes
        • STR_DTYPE
        • INT_DTYPES
        • FLOAT_DTYPES
        • NUM_DTYPES
        • FIXED_DTYPES
        • ENTRIES_DTYPES
        • ALL_DTYPES
        • DType
        • DTypes
        • dtype_of()
        • has_dtype()
        • is_dtype()
      • daf.typing.layouts
        • AnyMajor
          • AnyMajor.name
          • AnyMajor.numpy_order
          • AnyMajor.numpy_flag
          • AnyMajor.contiguous_axis
          • AnyMajor.sparse_class
          • AnyMajor.sparse_class_name
        • ROW_MAJOR
        • COLUMN_MAJOR
        • has_layout()
        • copy2d()
        • fast_all_close()
        • as_layout()
        • BLOCK_SIZE
      • daf.typing.optimization
        • KnownT
        • why_not_optimal()
        • is_optimal()
        • be_optimal()
        • optimize()
      • daf.typing.freezing
        • ProperT
        • freeze()
        • unfreeze()
        • is_frozen()
        • unfrozen()
      • daf.typing.descriptions
        • data_description()
        • assert_data()
      • daf.typing fake
        • Series
        • DataFrame
        • spmatrix
        • cs_matrix
  • daf.groups
    • aggregate_group_data1d()
    • aggregate_group_data2d()
    • most_frequent()
    • create_group_axis()
    • count_group_members()
    • count_group_values()
    • assign_group_values()
  • Index
• TODO