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There is a good amount of overlap with other SIGs and Spins and some categories of NeuroFedora can be seen as BigData, Fedora-Medical, ML, Octave and SciTech in general.
{{admon/tip|Suggest more software!|Please use [https://goo.gl/forms/j6AJ82yOh78MPxby1 this form] to suggest more software for inclusion in NeuroFedora.}}


Please add software that needs to be packaged to the appropriate table with the status "needs packaging". If a package is in a COPR repository, a status of "COPR" can be used. Once a package is in review, the status should be "In review", and of course, once a package is in the repositories, the final status would be "Packaged".  
{{admon/tip|Moved to Pagure|The list of software to be packaged is now at [https://pagure.io/neuro-sig/NeuroFedora/issues the Pagure instance].}}


Please feel free to reorganise the tables as required.
{{admon/tip|Complete list of available software| All software that is already packaged can be seen [https://src.fedoraproject.org/group/neuro-sig here on src.fedoraproject.org].}}
 
If you use a package that is not available in Fedora yet, please feel free to e-mail us and we'll look into providing it. You can either contact us on the mailing list, the IRC channel, or e-mail us privately too!
 
 
== Packages for Distributed Computing ==
{| class="wikitable"
|-
! Package !! Summary !! Status !! Comment
|-
| {{FpPackage|example}} || || Packaged ||
|-
|}
 
== Packages for Image analysis ==
 
{| class="wikitable"
|-
! Package !! Summary !! Status !! Comment
|-
| {{FpPackage|ctk }} || The CTK core library for Image analysis || Packaged ||
|-
| {{FpPackage|dcm2niix }} || Conver neuroimaging data from NIFTI format to DICOM || Packaged ||
|-
| {{FpPackage|isis }} || Framework to access a large variety of image libraries|| Needs import ||
|-
| {{FpPackage|libminc }} || Library to work with the MINC file format || Packaged ||
|-
| {{FpPackage|python-nibabel }} || Python package to access a cacophony of neuro-imaging file formats|| Packaged ||
|-
| {{FpPackage|python-pydicom }} || Read, modify, and write DICOM files with Python|| Packaged ||
|-
| {{FpPackage|rubygem-nifti }} || Pure-ruby library for handling NIfTI data in Ruby|| Packaged ||
|-
|}
 
== Packages for Data Analysis ==
{| class="wikitable"
|-
! Package !! Summary !! Status !! Comment
|-
| {{FpPackage|python-mne }} || Magnetoencephalography (MEG) and Electroencephalography (EEG) data analysis || Packaged ||
|-
| {{FpPackage|python-pyactivetwo }} ||Python library for reading signal from BioSemi ActiveTwo EEG device || Packaged ||
|-
|}
 
 
== Packages for Modeling of neural systems ==
{| class="wikitable"
|-
! Package !! Summary !! Status !! Comment
|-
| [http://nest-simulator.org NEST neural simulator] || The neural simulation tool|| In review, needs work [[rhbug:1273579| 1273579]] ||
|-
| [http://briansimulator.org/ Brian] || The Brian spiking neural simulator || Needs packaging, dead review [[rhbug:1098754|1098754]] ||
|-
| [https://github.com/NeuralEnsemble/PyNN PyNN] || A Python package for simulator independent specification of neuronal network models|| Review ready, needs deps [[rhbug:1150105| 1150105]]||
|-
| [https://www.neuron.yale.edu/neuron/ The NEURON simulator] || Empirically based simulations of neurons and networks of neurons|| Needs packaging, dead review [[rhbug:1249094|1249094]]||
|-
| {{FpPackage|example}} || || Packaged ||
|-
|}
 
== Misc Libraries/Utilities ==
 
{| class="wikitable"
|-
! Package !! Summary !! Status !! Comment
|-
| {{FpPackage|python-neo}} || Represent electrophysiology data in Python || Packaged ||
|-
| {{FpPackage|DiffusionKurtosisFit }} || Reconstruct Diffusion Kurtosis tensor from Diffusion Weighted MRI || Packaged ||
|-
| {{FpPackage|getdp }} || Finite element solver || Packaged ||
|-
| {{FpPackage|gifticlib }} || Refernce IO implementation and tools of the GIFTI XML based file format for cortical surface data || Packaged ||
|-
| {{FpPackage|nipy-data }} || Test data and brain templates for nipy|| Packaged ||
|-
| {{FpPackage|openigtlink }} || Reference implementation of OpenIGTLink: a set of message formats and protocols used for data exchange over a local area network|| Packaged ||
|-
| {{FpPackage|petpvc }} || Tools for partial volume correction (PVC) in positron emission tomography (PET)|| Packaged ||
|-
| {{FpPackage|python-amico }} || Relationships backed by Redis|| Packaged ||
|-
| {{FpPackage|python-baker }} || Easy, powerful access to Python functions from the command line|| Packaged ||
|-
| {{FpPackage|python-citeproc-py }} || Citations and bibliography formatter|| Packaged ||
|-
| {{FpPackage|python-gradunwarp }} || Gradient Unwarping|| Packaged ||
|-
| {{FpPackage|python-h5io }} || Read and write simple Python objects using HDF5|| Packaged ||
|-
| {{FpPackage|python-interfile }} || Python module for read/write/parse interfile|| Packaged ||
|-
| {{FpPackage|python-klusta }} || Spike detection and automatic clustering for spike sorting|| Packaged ||
|-
 
| {{FpPackage|python-lazyarray }} || A lazily-evaluated numerical array class|| Packaged ||
|-
| {{FpPackage|python-moss }} || Assorted utilities for neuroimaging and cognitive science|| Packaged ||
|-
| {{FpPackage|python-nixio }} || Python bindings for NIX, the Neuroscience Exchange Format|| Packaged ||
|-
| {{FpPackage|python-pydotplus }} || Python interface to Graphviz's Dot language|| Packaged ||
|-
| {{FpPackage|python-PyLink }} || Universal communication interface using File-Like API|| Packaged ||
|-
| {{FpPackage|python-pyoptical }} || Pure Python interface to OptiCAL|| Packaged ||
|-
| {{FpPackage|python-pyriemann }} || Covariance matrices manipulaton and Biosignal classification|| Packaged ||
|-
| {{FpPackage|python-pyxid }} || Python library for interfacing with Cedrus XID and StimTracker devices|| Packaged ||
|-
| {{FpPackage|python-quantities }} || Support for physical quantities with units, based on numpy|| Packaged ||
|-
| {{FpPackage|python-simplewrap }} || Easy to use wrappers generator for C libraries based on ctypes|| Packaged ||
|-
| {{FpPackage|python-tabulate }} || Pretty-print tabular data in Python, a library and a command-line utility|| Packaged ||
|-
| {{FpPackage|python-transforms3d}} || 3 dimensional spatial transformations|| Packaged ||
|-
| {{FpPackage|texlive}} || The LaTeX typesetting system for academic writing|| Packaged ||
|-
| {{FpPackage|python-grabbit}} || Get grabby with file trees! || Packaged ||
|-
| {{FpPackage|python-cma}} || Covariance Matrix Adaptation Evolution Strategy numerical optimizer || Packaged ||
|-
|}

Latest revision as of 23:59, 1 November 2018

Suggest more software!
Please use this form to suggest more software for inclusion in NeuroFedora.
Moved to Pagure
The list of software to be packaged is now at the Pagure instance.
Complete list of available software
All software that is already packaged can be seen here on src.fedoraproject.org.