Software for neuro-imaging

Upstream packages

The following tools are among the software currently tested in NeuroFedora and can be installed directly from upstream forges (e.g. PyPi). You can see the tests results here.

Python packages

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Software Summary pip (PyPi) Notes

Software	Summary	pip (PyPi)	Notes
dipy	Diffusion MRI Imaging in Python.	`dipy`
mne	MNE-Python project for MEG and EEG data analysis.	`mne`
mne-bids	MNE-BIDS: Organizing MEG, EEG, and iEEG data according to the BIDS specification and facilitating their analysis with MNE-Python.	`mne-bids`
nilearn	Statistical learning for neuroimaging in Python.	`nilearn`
nipy	A python package for analysis of neuroimaging data.	`nipy`
nipype	Neuroimaging in Python: Pipelines and Interfaces.	`nipype`
pybids	bids: interface with datasets conforming to BIDS.	`pybids`
wxnatpy	wxPython XNAT repository browser.	`wxnatpy`	Does not build from PyPi

dipy

Diffusion MRI Imaging in Python.

dipy

mne

MNE-Python project for MEG and EEG data analysis.

mne

mne-bids

MNE-BIDS: Organizing MEG, EEG, and iEEG data according to the BIDS specification and facilitating their analysis with MNE-Python.

mne-bids

nilearn

Statistical learning for neuroimaging in Python.

nilearn

nipy

A python package for analysis of neuroimaging data.

nipy

nipype

Neuroimaging in Python: Pipelines and Interfaces.

nipype

pybids

bids: interface with datasets conforming to BIDS.

pybids

wxnatpy

wxPython XNAT repository browser.

wxnatpy

Does not build from PyPi

Showing 1 to 8 of 8 entries

System packages

The following are included in the repositories:

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Software Install with Notes

Software	Install with	Notes
Alizams	`sudo dnf install alizams`	A DICOM viewer.
DICOMAnonymizer	`sudo dnf install dicomanonymizer`	A multi-threaded anonymizer for DICOM files implementing most of DICOM PS 3.15 AnnexE
dipy	`sudo dnf install python3-dipy`	Diffusion MRI utilities in Python.
ephyviewer	`sudo dnf install python3-ephyviewer`	A Python library based on pyqtgraph for building custom viewers for electrophysiological signals, video, events, epochs, spike trains, data tables, and time-frequency representations of signals.
fsleyes	`sudo dnf install python3-fsleyes`	FSLeyes, the FSL image viewer.
gifticlib	`sudo dnf install gifticlib`	Reference IO implementation for GIFTI
giftiio	`sudo dnf install python3-giftiio`	Python library for working with GIFTI.
jnifti	`sudo dnf install octave-jnifti`	A fast NIfTI-1/2 reader and NIfTI-to-JNIfTI converter
nilearn	`sudo dnf install python3-nilearn`	Python module for fast and easy statistical learning on NeuroImaging data.
nistats	`sudo dnf install python3-nistats`	Modeling and Statistical analysis of fMRI data in Python.
octave-dicom	`sudo dnf install octave-dicom`	dicom: file io for medical images and other data.
petlink	`sudo dnf install python3-petlink`	Decode and encode Petlink data streams (32 and 64 bit).
pybids	`sudo dnf install python3-pybids`	Interface with datasets conforming to BIDS.
pynetdicom	`sudo dnf install python3-pynetdicom`	A Python implementation of the DICOM networking protocol.

Alizams

sudo dnf install alizams

A DICOM viewer.

DICOMAnonymizer

sudo dnf install dicomanonymizer

A multi-threaded anonymizer for DICOM files implementing most of DICOM PS 3.15 AnnexE

dipy

sudo dnf install python3-dipy

Diffusion MRI utilities in Python.

ephyviewer

sudo dnf install python3-ephyviewer

A Python library based on pyqtgraph for building custom viewers for electrophysiological signals, video, events, epochs, spike trains, data tables, and time-frequency representations of signals.

fsleyes

sudo dnf install python3-fsleyes

FSLeyes, the FSL image viewer.

gifticlib

sudo dnf install gifticlib

Reference IO implementation for GIFTI

giftiio

sudo dnf install python3-giftiio

Python library for working with GIFTI.

jnifti

sudo dnf install octave-jnifti

A fast NIfTI-1/2 reader and NIfTI-to-JNIfTI converter