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README.rst

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  1. ===
    2. 

  2. Neo
    3. 

  3. ===
    4. 

  4. 

  5. Neo is a Python package for working with electrophysiology data in Python, together
    6. 

  6. with support for reading a wide range of neurophysiology file formats, including
    7. 

  7. Spike2, NeuroExplorer, AlphaOmega, Axon, Blackrock, Plexon, Tdt, and support for
    8. 

  8. writing to a subset of these formats plus non-proprietary formats including HDF5.
    9. 

  9. 

  10. The goal of Neo is to improve interoperability between Python tools for
    11. 

  11. analyzing, visualizing and generating electrophysiology data by providing a common,
    12. 

  12. shared object model. In order to be as lightweight a dependency as possible,
    13. 

  13. Neo is deliberately limited to represention of data, with no functions for data
    14. 

  14. analysis or visualization.
    15. 

  15. 

  16. Neo is used by a number of other software tools, including OpenElectrophy_
    17. 

  17. and SpykeViewer_ (data analysis and visualization), Elephant_ (data analysis),
    18. 

  18. the G-node_ suite (databasing) and PyNN_ (simulations).
    19. 

  19. 

  20. Neo implements a hierarchical data model well adapted to intracellular and
    21. 

  21. extracellular electrophysiology and EEG data with support for multi-electrodes
    22. 

  22. (for example tetrodes). Neo's data objects build on the quantities package,
    23. 

  23. which in turn builds on NumPy by adding support for physical dimensions. Thus
    24. 

  24. Neo objects behave just like normal NumPy arrays, but with additional metadata,
    25. 

  25. checks for dimensional consistency and automatic unit conversion.
    26. 

  26. 

  27. A project with similar aims but for neuroimaging file formats is `NiBabel`_.
    28. 

  28. 

  29. Code status
    30. 

  30. -----------
    31. 

  31. 

  32. .. image:: https://travis-ci.org/NeuralEnsemble/python-neo.png?branch=master
    33. 

  33.    :target: https://travis-ci.org/NeuralEnsemble/python-neo
    34. 

  34.    :alt: Unit Test Status
    35. 

  35. .. image:: https://coveralls.io/repos/NeuralEnsemble/python-neo/badge.png
    36. 

  36.    :target: https://coveralls.io/r/NeuralEnsemble/python-neo
    37. 

  37.    :alt: Unit Test Coverage
    38. 

  38. .. image:: https://requires.io/github/NeuralEnsemble/python-neo/requirements.png?branch=master
    39. 

  39.    :target: https://requires.io/github/NeuralEnsemble/python-neo/requirements/?branch=master
    40. 

  40.    :alt: Requirements Status
    41. 

  41. 

  42. More information
    43. 

  43. ----------------
    44. 

  44. 

  45. - Home page: http://neuralensemble.org/neo
    46. 

  46. - Mailing list: https://groups.google.com/forum/?fromgroups#!forum/neuralensemble
    47. 

  47. - Documentation: http://neo.readthedocs.io/
    48. 

  48. - Bug reports: https://github.com/NeuralEnsemble/python-neo/issues
    49. 

  49. 

  50. For installation instructions, see doc/source/install.rst
    51. 

  51. 

  52. :copyright: Copyright 2010-2016 by the Neo team, see doc/source/authors.rst.
    53. 

  53. :license: 3-Clause Revised BSD License, see LICENSE.txt for details.
    54. 

  54. 

  55. 

  56. .. _OpenElectrophy: https://github.com/OpenElectrophy/OpenElectrophy
    57. 

  57. .. _Elephant: http://neuralensemble.org/elephant
    58. 

  58. .. _G-node: http://www.g-node.org/
    59. 

  59. .. _Neuroshare: http://neuroshare.org/
    60. 

  60. .. _SpykeViewer: https://spyke-viewer.readthedocs.org/en/latest/
    61. 

  61. .. _NiBabel: http://nipy.sourceforge.net/nibabel/
    62. 

  62. .. _PyNN: http://neuralensemble.org/PyNN
    63. 

  63. .. _quantities: http://pypi.python.org/pypi/quantities
    64. 

  64. .. _`NeuralEnsemble mailing list`: http://groups.google.com/group/neuralensemble
    65. 

  65. .. _`issue tracker`: https://github.c
    66.