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NIPY

Neuroimaging tools for Python.

The aim of NIPY is to produce a platform-independent Python environment for the analysis of functional brain imaging data using an open development model.

In NIPY we aim to:

  1. Provide an open source, mixed language scientific programming environment suitable for rapid development.
  2. Create software components in this environment to make it easy to develop tools for MRI, EEG, PET and other modalities.
  3. Create and maintain a wide base of developers to contribute to this platform.
  4. To maintain and develop this framework as a single, easily installable bundle.

NIPY is the work of many people. We list the main authors in the file AUTHOR in the NIPY distribution, and other contributions in THANKS.

Website

Current information can always be found at the NIPY project website.

Mailing Lists

For questions on how to use nipy or on making code contributions, please see the neuroimaging mailing list:

https://mail.python.org/mailman/listinfo/neuroimaging

Please report bugs at github issues:

https://github.com/nipy/nipy/issues

You can see the list of current proposed changes at:

https://github.com/nipy/nipy/pulls

Code

You can find our sources and single-click downloads:

Tests

To run nipy's tests, you will need to install the pytest Python testing package:

pip install pytest

Then:

pytest nipy

You can run the doctests along with the other tests with:

pip install pytest-doctestplus

Then:

pytest --doctest-plus nipy

Installation

See the latest installation instructions.

License

We use the 3-clause BSD license; the full license is in the file LICENSE in the nipy distribution.

NIPY developers's Projects

brainx icon brainx

Tools for analysis of brain imaging-derived networks, based on NetworkX

dmriprep icon dmriprep

MOVED TO https://github.com/nipreps/dmriprep

heudiconv icon heudiconv

A flexible DICOM converter for organizing brain imaging data into structured directory layouts

mindboggle icon mindboggle

Automated anatomical brain label/shape analysis software (+ website)

nibabel icon nibabel

Python package to access a cacophony of neuro-imaging file formats

nidoodles icon nidoodles

Work-in-progress notes and code fragments for the nipy projects

nilabels icon nilabels

Tools to automate simple manipulations and measurements of medical images and segmentations in nifti format.

nipy icon nipy

Neuroimaging in Python FMRI analysis package

nipy-labs icon nipy-labs

Work-in-progress add-ons for nipy (require lapack)

nipy-suite icon nipy-suite

Meta-project to provide a single point of getting/testing for all projects under NiPy umbrella

nipype icon nipype

Workflows and interfaces for neuroimaging packages

nireg icon nireg

Brain image registration package

nisext icon nisext

Shareable distutils etc utilities

nitime icon nitime

Timeseries analysis for neuroscience data

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