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PyNIfTI specifications


Unique identifier OMICS_21598
Name PyNIfTI
Alternative name Pythonic access to NIfTI and ANALYZE files
Software type Package/Module
Interface Application programming interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Java, MATLAB, Python
License MIT License
Computer skills Advanced
Version 0.20090205.1
Stability Stable
Maintained Yes


  • nifti. nifticlib
  • nifti.nifticlib
  • nifti.niftiformat
  • nifti.niftiimage
  • nifti.utils




No version available



  • person_outline Michael Hanke

PyNIfTI citations


Motor deficits correlate with resting state motor network connectivity in patients with brain tumours

PMCID: 3326259
PMID: 22408270
DOI: 10.1093/brain/aws041

[…] s was identified as the centroid of the SMA, PMA, SPL or PMC. The procedure was carried out twice, once for the right PMC and once for the left. Images were imported into the Python environment using PyNifti, and time-series analysis was carried out with the Nitime package (; ), as well as custom Python scripts. A matrix of cross-correlation between each time-series was then constructed by pairwis […]


Near Infrared Neuroimaging with NinPy

Front Neuroinform
PMCID: 2698776
PMID: 19543449
DOI: 10.3389/neuro.11.012.2009

[…] road standard HDF5. These formats enable broad interoperability of the NinPy suite with existing tools for neuroimaging data analysis. NIfTI files are created, read and written through the use of the PyNIfTI package (Hanke, ), whereas the HomER file format can be read and written as a Matlab.mat file or HDF5 file (also readable by Matlab) containing multiple arrays with specific variable names. Re […]


Retinotopic Activation in Response to Subjective Contours in Primary Visual Cortex

Front Hum Neurosci
PMCID: 2525970
PMID: 18958203
DOI: 10.3389/neuro.09.002.2008

[…] w diagrams of Figures and . We then extracted the spatially and temporally smoothed peristimulus fMRI response evoked by near and far aligned and misaligned stimuli from the voxels of interest using PyNIfTi ( Event-related signals spanning a time window of 12 seconds were averaged time-locked to stimulus onset. We included correct and incorrect trials alike. A per […]


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