.. toctree::
    :maxdepth: 2

.. autofunction:: spectral.spectral.open_image

.. autoclass:: spectral.image.ImageArray

.. autoclass:: spectral.SpyFile
   :members: __str__, __getitem__, load

SpyFile is an abstract base class. Subclasses of :class:`~spectral.io.spyfile.SpyFile` (:class:`~spectral.io.bipfile.BipFile`, :class:`~spectral.io.bipfile.BilFile`, :class:`~spectral.io.bsqfile.BsqFile`) all implement a common set of additional methods. :class:`~spectral.io.bipfile.BipFile` is shown here but the other two are similar.

.. autoclass:: spectral.io.bipfile.BipFile
   :members: open_memmap, read_band, read_bands, read_pixel, read_subregion, read_subimage

.. autoclass:: spectral.io.spyfile.SubImage
   :members: read_band, read_bands, read_pixel, read_subregion, read_subimage

.. automodule:: spectral.io.aviris
   :members: open, read_aviris_bands

.. automodule:: spectral.io.envi
   :members: open, SpectralLibrary

.. autofunction:: spectral.io.envi.create_image

.. autofunction:: spectral.io.envi.save_classification

.. autofunction:: spectral.io.envi.save_image

.. automodule:: spectral.io.erdas
   :members: open

.. autoclass:: spectral.ColorScale
   :members: __init__, __call__, set_background_color, set_range

.. autofunction:: spectral.graphics.graphics.get_rgb

.. autoclass:: spectral.graphics.spypylab.ImageView
   :members: __init__, set_data, set_classes, set_source, show, label_region, refresh, set_display_mode, class_alpha, interpolation, open_zoom, pan_to, format_coord, set_rgb_options

.. autofunction:: spectral.graphics.spypylab.imshow

.. autofunction:: spectral.save_rgb

.. autofunction:: spectral.view

.. autofunction:: spectral.view_cube

.. autofunction:: spectral.view_indexed

.. autofunction:: spectral.view_nd

.. autofunction:: spectral.create_training_classes

.. autoclass:: spectral.algorithms.algorithms.TrainingClass
   :members: __init__, __iter__, stats_valid, size, calc_stats, transform
   :special-members: __init__, __iter__

.. autoclass:: spectral.algorithms.algorithms.TrainingClassSet
   :members: add_class, transform, all_samples, __getitem__, __len__, __iter__

.. autofunction:: spectral.algorithms.detectors.ace

.. autoclass:: spectral.database.AsterDatabase
   :members:

.. autoclass:: spectral.BandInfo

.. autoclass:: spectral.algorithms.resampling.BandResampler
   :members: __init__, __call__

.. autofunction:: spectral.algorithms.algorithms.bdist

.. autofunction:: spectral.calc_stats

.. autofunction:: spectral.algorithms.algorithms.covariance

.. autofunction:: spectral.algorithms.algorithms.cov_avg

.. autoclass:: spectral.database.EcostressDatabase
   :members:

.. autoclass:: spectral.algorithms.algorithms.FisherLinearDiscriminant

.. autoclass:: spectral.algorithms.classifiers.GaussianClassifier
   :members: __init__, train, classify_spectrum
   :special-members: __init__
   :inherited-members: classify_image

.. autoclass:: spectral.algorithms.algorithms.GaussianStats

.. autofunction:: spectral.kmeans

.. autofunction:: spectral.linear_discriminant

.. autoclass:: spectral.algorithms.transforms.LinearTransform
   :members: __init__, __call__, chain
   :special-members: __init__, __call__

.. autoclass:: spectral.algorithms.classifiers.MahalanobisDistanceClassifier
   :members: __init__, train, classify_spectrum
   :special-members: __init__
   :inherited-members: classify_image

.. autofunction:: spectral.algorithms.spatial.map_class_ids

.. autofunction:: spectral.algorithms.spatial.map_classes

.. autofunction:: spectral.algorithms.detectors.matched_filter

.. autoclass:: spectral.algorithms.detectors.MatchedFilter
   :members: __init__, whiten
   :special-members: __init__, __call__

.. autofunction:: spectral.algorithms.algorithms.mean_cov

.. autofunction:: spectral.algorithms.algorithms.mnf

.. autoclass:: spectral.algorithms.algorithms.MNFResult
   :members: denoise, get_denoising_transform, reduce, get_reduction_transform, num_with_snr

.. autofunction:: spectral.algorithms.algorithms.msam

.. autofunction:: spectral.algorithms.algorithms.ndvi

.. autofunction:: spectral.algorithms.algorithms.noise_from_diffs

.. autofunction:: spectral.algorithms.algorithms.orthogonalize

.. autoclass:: spectral.algorithms.classifiers.PerceptronClassifier
   :members: __init__, train, classify_spectrum
   :inherited-members: classify_image

.. autofunction:: spectral.algorithms.algorithms.ppi

.. autofunction:: spectral.principal_components

.. autoclass:: spectral.algorithms.algorithms.PrincipalComponents
   :members: reduce
   :inherited-members: transform

.. autofunction:: spectral.algorithms.detectors.rx

.. autofunction:: spectral.algorithms.algorithms.spectral_angles

.. autoclass:: spectral.io.envi.SpectralLibrary
   :members:

.. autofunction:: spectral.io.spyfile.transform_image

.. autoclass:: spectral.config.SpySettings

.. autofunction:: spectral.algorithms.algorithms.iterator