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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.}} |
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| 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].}} |
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| 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].}} |
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| 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!
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| == Packages for Distributed Computing ==
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| {| class="wikitable" | |
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| ! Package !! Summary !! Status !! Comment
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| | {{FpPackage|example}} || || Packaged ||
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| |}
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| == Packages for Image analysis ==
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| {| class="wikitable"
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| ! Package !! Summary !! Status !! Comment
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| | {{FpPackage|ctk }} || The CTK core library for Image analysis || Packaged ||
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| | {{FpPackage|dcm2niix }} || Conver neuroimaging data from NIFTI format to DICOM || Packaged ||
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| | {{FpPackage|isis }} || Framework to access a large variety of image libraries|| Needs import ||
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| | {{FpPackage|libminc }} || Library to work with the MINC file format || Packaged ||
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| | {{FpPackage|python-nibabel }} || Python package to access a cacophony of neuro-imaging file formats|| Packaged ||
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| | {{FpPackage|python-pydicom }} || Read, modify, and write DICOM files with Python|| Packaged ||
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| | {{FpPackage|rubygem-nifti }} || Pure-ruby library for handling NIfTI data in Ruby|| Packaged ||
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| |}
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| == Packages for Data Analysis ==
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| {| class="wikitable"
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| ! Package !! Summary !! Status !! Comment
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| | {{FpPackage|python-mne }} || Magnetoencephalography (MEG) and Electroencephalography (EEG) data analysis || Packaged ||
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| | {{FpPackage|python-pyactivetwo }} ||Python library for reading signal from BioSemi ActiveTwo EEG device || Packaged ||
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| |}
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| == Packages for Modeling of neural systems ==
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| {| class="wikitable"
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| ! Package !! Summary !! Status !! Comment
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| | {{FpPackage|moose}} || Multiscale Neuroscience and Systems Biology Simulator || Packaged ||
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| | [http://nest-simulator.org NEST neural simulator] || The neural simulation tool|| In review, needs work [[rhbug:1273579| 1273579]] || | |
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| | [http://briansimulator.org/ Brian] || The Brian spiking neural simulator || Needs packaging, dead review [[rhbug:1098754|1098754]] ||
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| | [https://github.com/NeuralEnsemble/PyNN PyNN] || A Python package for simulator independent specification of neuronal network models|| Review ready, needs deps [[rhbug:1150105| 1150105]]||
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| | [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]]||
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| | [https://github.com/Neurosim-lab/netpyne NetPyNE] || A python package to facilitate the development of biological neuronal networks in NEURON || Needs packaging, depends on NEURON ||
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| | {{FpPackage|example}} || || Packaged ||
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| |}
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| == Misc Libraries/Utilities ==
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| {| class="wikitable"
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| ! Package !! Summary !! Status !! Comment
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| | {{FpPackage|python-neo}} || Represent electrophysiology data in Python || Packaged ||
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| | {{FpPackage|DiffusionKurtosisFit }} || Reconstruct Diffusion Kurtosis tensor from Diffusion Weighted MRI || Packaged ||
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| | {{FpPackage|getdp }} || Finite element solver || Packaged ||
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| | {{FpPackage|gifticlib }} || Refernce IO implementation and tools of the GIFTI XML based file format for cortical surface data || Packaged ||
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| | {{FpPackage|nipy-data }} || Test data and brain templates for nipy|| Packaged ||
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| | {{FpPackage|openigtlink }} || Reference implementation of OpenIGTLink: a set of message formats and protocols used for data exchange over a local area network|| Packaged ||
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| | {{FpPackage|petpvc }} || Tools for partial volume correction (PVC) in positron emission tomography (PET)|| Packaged ||
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| | {{FpPackage|python-amico }} || Relationships backed by Redis|| Packaged ||
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| | {{FpPackage|python-baker }} || Easy, powerful access to Python functions from the command line|| Packaged ||
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| | {{FpPackage|python-citeproc-py }} || Citations and bibliography formatter|| Packaged ||
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| | {{FpPackage|python-gradunwarp }} || Gradient Unwarping|| Packaged ||
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| | {{FpPackage|python-h5io }} || Read and write simple Python objects using HDF5|| Packaged ||
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| | {{FpPackage|python-interfile }} || Python module for read/write/parse interfile|| Packaged ||
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| | {{FpPackage|python-klusta }} || Spike detection and automatic clustering for spike sorting|| Packaged ||
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| | {{FpPackage|python-lazyarray }} || A lazily-evaluated numerical array class|| Packaged ||
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| | {{FpPackage|python-moss }} || Assorted utilities for neuroimaging and cognitive science|| Packaged ||
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| | {{FpPackage|python-nixio }} || Python bindings for NIX, the Neuroscience Exchange Format|| Packaged ||
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| | {{FpPackage|python-pydotplus }} || Python interface to Graphviz's Dot language|| Packaged ||
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| | {{FpPackage|python-PyLink }} || Universal communication interface using File-Like API|| Packaged ||
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| | {{FpPackage|python-pyoptical }} || Pure Python interface to OptiCAL|| Packaged ||
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| | {{FpPackage|python-pyriemann }} || Covariance matrices manipulaton and Biosignal classification|| Packaged ||
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| | {{FpPackage|python-pyxid }} || Python library for interfacing with Cedrus XID and StimTracker devices|| Packaged ||
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| | {{FpPackage|python-quantities }} || Support for physical quantities with units, based on numpy|| Packaged ||
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| | {{FpPackage|python-simplewrap }} || Easy to use wrappers generator for C libraries based on ctypes|| Packaged ||
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| | {{FpPackage|python-tabulate }} || Pretty-print tabular data in Python, a library and a command-line utility|| Packaged ||
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| | {{FpPackage|python-transforms3d}} || 3 dimensional spatial transformations|| Packaged ||
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| | {{FpPackage|texlive}} || The LaTeX typesetting system for academic writing|| Packaged ||
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| | {{FpPackage|python-grabbit}} || Get grabby with file trees! || Packaged ||
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| | {{FpPackage|python-cma}} || Covariance Matrix Adaptation Evolution Strategy numerical optimizer || Packaged ||
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| |}
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