Bug#600714: ITP: nitime -- timeseries analysis for neuroscience data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: nitime Version : 0.1.0 Upstream Author : Nipy Developers * URL : http://nipy.org/nitime * License : BSD Programming Lang: Python Description : timeseries analysis for neuroscience data Nitime is a Python module for time-series analysis of data from neuroscience experiments. It contains a core of numerical algorithms for time-series analysis both in the time and spectral domains, a set of container objects to represent time-series, and auxiliary objects that expose a high level interface to the numerical machinery and make common analysis tasks easy to express with compact and semantically clear code. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101019141005.31972.71955.report...@novo.onerussian.com
Bug#601707: ITP: libgdf -- IO library for the GDF (general dataformat for biosignals)
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: libgdf Version : 0.1 Upstream Author : Martin Billinger * URL : http://sourceforge.net/projects/libgdf * License : LGPL Programming Lang: C++ Description : IO library for the GDF (general dataformat for biosignals) GDF (General Dataformat for Biosignals) is intended to provide a generic storage for biosignals, such as EEG, ECG, MEG etc. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101028180446.26517.39377.report...@novo.onerussian.com
Bug#602246: ITP: brian -- simulator for spiking neural networks
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: brian Version : 1.2.1 Upstream Author : Romain Brette, Dan Goodman * URL : http://www.briansimulator.org/ * License : CeCILL Programming Lang: Python Description : simulator for spiking neural networks Brian is a clock-driven simulator for spiking neural networks. . More to come ;) -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101102220829.8678.83925.report...@novo.onerussian.com
Bug#604159: ITP: pynn -- simulator-independent specification of neuronal network models
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: pynn Version : 0.6 Upstream Author : The NeuralEnsemble Community * URL : http://neuralensemble.org/trac/PyNN * License : CeCILL-2 Programming Lang: Python Description : simulator-independent specification of neuronal network models PyNN allows to code for a model once and run it without modification on any simulator that PyNN supports (currently NEURON, NEST, PCSIM and Brian). PyNN translates standard cell-model names and parameter names into simulator-specific names. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101120190631.26387.81472.report...@novo.onerussian.com
Bug#604161: ITP: mpi4py -- bindings of the Message Passing Interface (MPI) standard
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: mpi4py Version : 1.2.2 Upstream Author : Lisandro Dalcin * URL : http://mpi4py.googlecode.com/ * License : BSD-2 Programming Lang: Python, C, Pyrex Description : bindings of the Message Passing Interface (MPI) standard MPI for Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for the Python programming language, allowing any Python program to exploit multiple processors. . This package is constructed on top of the MPI-1/MPI-2 specification and provides an object oriented interface which closely follows MPI-2 C++ bindings. It supports point-to-point (sends, receives) and collective (broadcasts, scatters, gathers) communications of any picklable Python object as well as optimized communications of Python object exposing the single-segment buffer interface (NumPy arrays, builtin bytes/string/array objects). . Packaging mpi4py as a prerequisite for PyNN (ITP #604159). Also, a copy of mpi4py (1.0.0) seems to be a part of paraview. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101120191241.25108.7641.report...@novo.onerussian.com
Bug#605414: ITP: pcsim -- simulator of heterogeneous networks of neurons and synapses
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: pcsim Version : 0.5.4 Upstream Author : Thomas Natschläger * URL : http://www.lsm.tugraz.at/pcsim/ * License : GPL-3+ Programming Lang: C, Python Description : simulator of heterogeneous networks of neurons and synapses PCSIM is a tool for simulating heterogeneous networks composed of different model neurons and synapses. This simulator is written in C++ with a primary interface to the programming language Python. It is intended to simulate networks containing up to millions of neurons and on the order of billions of synapses. This is achieved by distributing the network over different nodes of a computing cluster by using MPI. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101129190620.32129.3824.report...@novo.onerussian.com
Bug#605739: ITP: eeglab -- toolbox for processing and visualization of electrophysiological data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: eeglab Version : 9 Upstream Author : Arnaud Delorme , Scott Makeig * URL : http://sccn.ucsd.edu/eeglab * License : GPL-2+ Programming Lang: C, Matlab/Octave Description : toolbox for processing and visualization of electrophysiological data EEGLAB is an interactive Matlab toolbox for processing continuous and event-related EEG, MEG and other electrophysiological data incorporating independent component analysis (ICA), time/frequency analysis, artifact rejection, event-related statistics, and several useful modes of visualization of the averaged and single-trial data. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101202221236.17294.40013.report...@novo.onerussian.com
Bug#607213: ITP: pyxid -- interfacing with Cedrus XID and StimTracker devices
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: pyxid Version : 1.0~b6 Upstream Author : Grant Limberg * URL : https://github.com/cedrus-opensource/pyxid * License : BSD-3 Programming Lang: Python Description : interfacing with Cedrus XID and StimTracker devices pyxid is a Python library for interfacing with Cedrus XID (eXperiment Interface Device) and StimTracker devices. XID devices are used in software such as SuperLab, Presentation, and ePrime for receiving input as part of stimulus/response testing experiments. . pyxid handles all of the low level device handling for XID devices in python projects. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20101215183212.8557.39625.report...@novo.onerussian.com
Bug#609820: ITP: pyxnat -- interface to access neuroimaging data on XNAT servers
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: pyxnat Version : 0.6.2 Upstream Author : Yannick Schwartz * URL : http://packages.python.org/pyxnat * License : BSD Programming Lang: Python Description : interface to access neuroimaging data on XNAT servers XNAT is an extensible database for neuroimaging data. pyxnat is a Python library that relies on the REST API provided by the XNAT platform since its 1.4 version. The main objective of pyxnat is to ease communications with an XNAT server to plug-in external tools or python scripts to process the data. pyxnet features: . - resources browsing capabilities - read and write access to resources - complex searches - disk-caching of requested files and resources -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110112191613.13322.4072.report...@novo.onerussian.com
Bug#610347: ITP: dipy -- toolbox for analysis of MR diffusion imaging data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: dipy Version : 0.5.0~dev Upstream Author : Dipy Developers * URL : http://nipy.org/dipy * License : BSD Programming Lang: Python Description : toolbox for analysis of MR diffusion imaging Dipy is a toolbox for the analysis of diffusion magnetic resonance imaging data. It features: - Reconstruction algorithms, e.g. GQI, DTI - Tractography generation algorithms, e.g. EuDX - Intelligent downsampling of tracks - Ultra fast tractography clustering - Resampling datasets with anisotropic voxels to isotropic - Visualizing multiple brains simultaneously - Finding track correspondence between different brains - Warping tractographies into another space, e.g. MNI space - Reading many different file formats, e.g. Trackvis or NIfTI - Dealing with huge tractographies without memory restrictions - Playing with datasets interactively without storing -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110117194054.19214.57751.report...@novo.onerussian.com
Bug#612375: ITP: stimfit -- view and analyze electrophysiological data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: stimfit Version : 0.10.7 Upstream Author : Christoph Schmidt-Hieber * URL : http://code.google.com/p/stimfit/ * License : GPL-2 Programming Lang: C, Python Description : view and analyze electrophysiological data Stimfit is a free, fast and simple program for viewing and analyzing electrophysiological data. It features an embedded Python shell that allows you to extend the program functionality by using numerical libraries such as NumPy and SciPy. . It includes stfio module which supports some electrophysiological file formats: - Read/write: CFS binary data, HDF5 files, Axon text files, ASCII files - Read-only: Axon binary files (*.abf), Axograph files (*.axgd, *.axgx), HEKA files (*.dat, from version 0.10) * Write-only: Igor binary waves (*.ibw) -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110208032743.19501.97112.report...@novo.onerussian.com
Bug#757279: ITP: neurodebian -- integrated software platform for neuroscience research
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: neurodebian Version : 0.33 Upstream Author : NeuroDebian Team * URL : http://neuro.debian.net * License : GPL Programming Lang: Bash, Python, etc Description : integrated software platform for neuroscience research NeuroDebian aims to make Debian the ideal platform for research in neuroscience. NeuroDebian team participates in Debian pure blends (e.g. Debian Med and Science) and maintenance teams (e.g. Debian Python Modules) to enhance stock Debian distribution. Besides that it provides backport builds of relevant software for all supported Debian and Ubuntu releases from the project's website. . This source package contains the sources of the project's website, and delivers binary packages with development tools and user-systems customizations (e.g. artwork, popcon submissions settings, etc). -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/20140806204621.507.53794.report...@novo.onerussian.com
Bug#687726: ITP: spykeutils -- utilities for analyzing electrophysiological data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: spykeutils Version : 0.1.0 Upstream Author : Robert Pröpper * URL : https://github.com/rproepp/spykeutils * License : MIT/X Programming Lang: Python Description : utilities for analyzing electrophysiological data spykeutils is a Python library for analyzing and plotting data from neurophysiological recordings. It can be used by itself or in conjunction with Spyke Viewer, a multi-platform GUI application for navigating electrophysiological datasets. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20120915132035.10718.72074.report...@novo.onerussian.com
Bug#626225: ITP: cmtk -- The Computational Morphometry Toolkit
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: cmtk Version : 1.7.0 Upstream Author : Torsten Rohlfing * URL : http://www.nitrc.org/projects/cmtk/ * License : GPL-3+ Programming Lang: C++ Description : The Computational Morphometry Toolkit A software toolkit for computational morphometry of biomedical images, CMTK comprises a set of command line tools and a back-end general-purpose library for processing and I/O. . The command line tools primarily provide the following functionality: registration (affine and nonrigid; single and multi-channel; pairwise and groupwise), image correction (MR bias field estimation; interleaved image artifact correction), processing (filters; combination of segmentations via voting and STAPLE; shape-based averaging), statistics (t-tests; general linear regression). -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110510023932.5170.69169.report...@novo.onerussian.com
Bug#627262: ITP: klustakwik -- spike sorting tool
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: klustakwik Version : 2.0.1 Upstream Author : Ken Harris (har...@axon.rutgers.edu) * URL : http://sourceforge.net/projects/klustakwik/ * License : GPL-2+ Programming Lang: C/C++ Description : automatic sorting of the samples (spikes) into clusters KlustaKwik is a program for automatic clustering of continuous data into a mixture of Gaussians. The program was originally developed for sorting of neuronal action potentials, but can be applied to any sort of data. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110519025327.26939.26373.report...@novo.onerussian.com
Bug#628183: ITP: freesurfer -- analysis and visualization of functional brain imaging data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: freesurfer Version : 5.1.0 Upstream Author : The General Hospital Corporation (Boston, MA) "MGH" * URL : http://surfer.nmr.mgh.harvard.edu/ * License : BSD-style FreeSurfer Software License Agreement v1.0 Programming Lang: C/C++/Python/Perl/... Description : analysis and visualization of functional brain imaging data FreeSurfer is a set of tools for analysis and visualization of structural and functional brain imaging data. It contains a fully automatic structural stream for processing cross sectional and longitudinal data. . FreeSurfer provides many anatomical analysis tools, including: representation of the cortical surface between white and gray matter, representation of the pial surface, segmentation of white matter from the rest of the brain, skull stripping, B1 bias field correction, nonlinear registration of the cortical surface of an individual with an sterotaxic atlas, labeling of regions of the cortical surface, statistical analysis of group morphometry differences, and labeling of subcortical brain structures, etc. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110528022523.5179.71626.report...@novo.onerussian.com
Bug#639820: ITP: scikits.image -- image processing toolbox for SciPy
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: scikits.image Version : 0.2.1 Upstream Author : Stefan van der Walt * URL : http://scikits-image.org/ * License : BSD Programming Lang: Python, Cython Description : image processing toolbox for SciPy scikits.image aims to provide algorithmic building blocks for research in image processing and computer vision. The package contains code that is well tested, documented and easily maintainable. We support various computing backends, such as NumPy and PyOpenCl. -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110830152236.24033.88633.report...@novo.onerussian.com
Bug#641464: ITP: pandas -- data structures for "relational" or "labeled" data
Package: wnpp Severity: wishlist Owner: NeuroDebian Team * Package name: pandas Version : 0.4.0 Upstream Author : Wes McKinney * URL : http://pandas.sourceforge.net * License : BSD-3 Programming Lang: Python, Cython Description : data structures for "relational" or "labeled" data pandas is a Python package providing fast, flexible, and expressive data structures designed to make working with "relational" or "labeled" data both easy and intuitive. It aims to be the fundamental high-level building block for doing practical, real world data analysis in Python. pandas is well suited for many different kinds of data: . - Tabular data with heterogeneously-typed columns, as in an SQL table or Excel spreadsheet - Ordered and unordered (not necessarily fixed-frequency) time series data. - Arbitrary matrix data (homogeneously typed or heterogeneous) with row and column labels - Any other form of observational / statistical data sets. The data actually need not be labeled at all to be placed into a pandas data structure -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110913152243.15825.15129.report...@novo.onerussian.com
