NIPYPE: Neuroimaging in Python: Pipelines and Interfaces

Current neuroimaging software offer users an incredible opportunity to analyze data using a variety of different algorithms. However, this has resulted in a heterogeneous collection of specialized applications without transparent interoperability or a uniform operating interface.

Nipype, an open-source, community-developed initiative under the umbrella of NiPy, is a Python project that provides a uniform interface to existing neuroimaging software and facilitates interaction between these packages within a single workflow. Nipype provides an environment that encourages interactive exploration of algorithms from different packages (e.g., SPM, FSL, FreeSurfer, AFNI, Slicer, ANTS), eases the design of workflows within and between packages, and reduces the learning curve necessary to use different packages. Nipype is creating a collaborative platform for neuroimaging software development in a high-level language and addressing limitations of existing pipeline systems.

Nipype allows you to:

• easily interact with tools from different software packages
• combine processing steps from different software packages
• develop new workflows faster by reusing common steps from old ones
• process data faster by running it in parallel on many cores/machines
• make your research easily reproducible
• share your processing workflows with the community

Documentation

Please see the doc/README.txt document for information on our documentation.

Website

Information specific to Nipype is located here:

http://nipy.org/nipype

Support and Communication

If you have a problem or would like to ask a question about how to do something in Nipype please open an issue in this GitHub repository.

To participate in the Nipype development related discussions please use the following mailing list:

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

Please add [nipype] to the subject line when posting on the mailing list.

Warning

As of Nov 23, 2016, NeuroStars is down. We used to have all previous Nipype questions available under the nipype label.

Nipype structure

Currently Nipype consists of the following files and directories:

INSTALL

NIPYPE prerequisites, installation, development, testing, and troubleshooting.

README

This document.

THANKS

NIPYPE developers and contributors. Please keep it up to date!!

LICENSE

NIPYPE license terms.

doc/

Sphinx/reST documentation

examples/

nipype/

Contains the source code.

setup.py

Script for building and installing NIPYPE.

License information

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

There are interfaces to some GNU code but these are entirely optional.

All trademarks referenced herein are property of their respective holders.

Copyright (c) 2009-2015, NIPY Developers All rights reserved.