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Chunked storage utilities

.. automodule:: allel.chunked

Storage

bcolz

.. autoclass:: allel.chunked.storage_bcolz.BcolzStorage

.. autoclass:: allel.chunked.storage_bcolz.BcolzMemStorage

.. autoclass:: allel.chunked.storage_bcolz.BcolzTmpStorage


.. autodata:: allel.chunked.storage_bcolz.bcolz_storage
    :annotation: = 'bcolz'

.. autodata:: allel.chunked.storage_bcolz.bcolzmem_storage
    :annotation: = 'bcolzmem'

.. autodata:: allel.chunked.storage_bcolz.bcolztmp_storage
    :annotation: = 'bcolztmp'

.. autodata:: allel.chunked.storage_bcolz.bcolz_zlib1_storage
    :annotation: = 'bcolz_zlib1'

.. autodata:: allel.chunked.storage_bcolz.bcolzmem_zlib1_storage
    :annotation: = 'bcolzmem_zlib1'

.. autodata:: allel.chunked.storage_bcolz.bcolztmp_zlib1_storage
    :annotation: = 'bcolztmp_zlib1'

HDF5 (h5py)

.. autoclass:: allel.chunked.storage_hdf5.HDF5Storage

.. autoclass:: allel.chunked.storage_hdf5.HDF5MemStorage

.. autoclass:: allel.chunked.storage_hdf5.HDF5TmpStorage


.. autodata:: allel.chunked.storage_hdf5.hdf5_storage
    :annotation: = 'hdf5'

.. autodata:: allel.chunked.storage_hdf5.hdf5mem_storage
    :annotation: = 'hdf5mem'

.. autodata:: allel.chunked.storage_hdf5.hdf5tmp_storage
    :annotation: = 'hdf5tmp'

.. autodata:: allel.chunked.storage_hdf5.hdf5_zlib1_storage
    :annotation: = 'hdf5_zlib1'

.. autodata:: allel.chunked.storage_hdf5.hdf5mem_zlib1_storage
    :annotation: = 'hdf5mem_zlib1'

.. autodata:: allel.chunked.storage_hdf5.hdf5tmp_zlib1_storage
    :annotation: = 'hdf5tmp_zlib1'


.. autofunction:: allel.chunked.storage_hdf5.h5fmem

.. autofunction:: allel.chunked.storage_hdf5.h5ftmp

Functions

.. autofunction:: allel.chunked.core.store

.. autofunction:: allel.chunked.core.copy

.. autofunction:: allel.chunked.core.apply

.. autofunction:: allel.chunked.core.reduce_axis

.. autofunction:: allel.chunked.core.amax

.. autofunction:: allel.chunked.core.amin

.. autofunction:: allel.chunked.core.asum

.. autofunction:: allel.chunked.core.count_nonzero

.. autofunction:: allel.chunked.core.compress

.. autofunction:: allel.chunked.core.take

.. autofunction:: allel.chunked.core.subset

.. autofunction:: allel.chunked.core.hstack

.. autofunction:: allel.chunked.core.vstack

.. autofunction:: allel.chunked.core.binary_op

.. autofunction:: allel.chunked.core.copy_table

.. autofunction:: allel.chunked.core.compress_table

.. autofunction:: allel.chunked.core.take_table

.. autofunction:: allel.chunked.core.vstack_table

.. autofunction:: allel.chunked.core.eval_table

Classes

.. autoclass:: allel.chunked.core.ChunkedArray

.. autoclass:: allel.chunked.core.ChunkedTable