Neuroinfo Toolkit

Neuroinfo Toolkit (NIT) is a general-purpose software development toolkit that emphasizes Neuroinformatics, Neuroimaging, and other Neuroscience research.

History

• new! Neuroinfo Toolkit v1.5.0b has been tagged! Lots of bug fixes, improvements, etc.
• neuro.apps.xnat now handles XNAT v1.4 and v1.5 (and may handle others as they become available)
• Neuroinfo Toolkit v1.4 (internal) changeset has been tagged!
• neuro.load() now enables you to link to a specific NIT version at runtime

Installation

We recommend reading: Installation

If you're sure you have all dependencies installed:

easy_install neuroinfo_toolkit

Supported Platforms

Questions, comments, or contributions: timothy [period] okeefe [at] gmail [period] com

Currently developed on

• Ubuntu 11.04 "Natty Narwhal"

Tested on

• Ubuntu 10.04+
• Red Hat Enterprise Linux 5+/CentOS 5+
• Mac OS X 10.5+ (not extensively tested)
• Windows 7 w/ Cygwin (not extensively tested)

PyPi

http://pypi.python.org/pypi/neuroinfo-toolkit/1.3.1

Example Code

#!/usr/bin/env python
import neuro
neuro.load("1.3.1")

from neuro.filesystem import *
from neuro.nifti import Nifti

file = "/data/file.nii.gz"

nifti = Nifti(file)
nifti.swapOrientation()
ts = nifti.getTimeseries(1, 1, 1)
filePutContents("~/timeseries.txt", ts)