Packages made by Yaroslav Halchenko <debian@onerussian.com>¶
- afni
- afni (toolkit for analyzing and visualizing functional MRI data)
- afni-common (miscellaneous scripts and data files for AFNI)
- afni-dbg (debug symbols for AFNI)
- afni-dev (header and static libraries for AFNI plugin development)
- afni-data
- afni-atlases (standard space brain atlases for AFNI)
- ants
- ants (advanced normalization tools for brain and image analysis)
- biosig4c++
- biosig-tools (format conversion tools for biomedical data formats)
- libbiosig-dev (I/O library for biomedical data - development files)
- libbiosig1 (I/O library for biomedical data - dynamic library)
- libbiosig1-dbg (I/O library for biomedical data - debug symbols)
- octave-biosig (Octave bindings for BioSig library)
- python-biosig (Python bindings for BioSig library)
- brian
- python-brian (simulator for spiking neural networks)
- python-brian-doc (simulator for spiking neural networks - documentation)
- python-brian-lib (simulator for spiking neural networks – extensions)
- btrbk
- btrbk (backup tool for btrfs subvolumes)
- caret
- caret (Computerized Anatomical Reconstruction and Editing Toolkit)
- caret-data
- caret-data (common data files for Caret)
- cctools
- coop-computing-tools (cooperative computing tools)
- coop-computing-tools-dev (libraries and header files for coop-computing-tools)
- coop-computing-tools-doc (documentation for coop-computing-tools)
- python-workqueue (cooperative computing tools work queue Python bindings)
- cde
- cde (package everything required to execute a Linux command on another computer)
- cmtk
- cmtk (Computational Morphometry Toolkit)
- connectome-workbench
- connectome-workbench (brain visualization, analysis and discovery tool)
- connectome-workbench-dbg (brain visualization, analysis and discovery tool – debug symbols)
- convert3d
- convert3d (tool(s) for converting 3D images between common file formats)
- cython
- cython (C-Extensions for Python)
- cython-dbg (C-Extensions for Python - debug build)
- datalad
- datalad (data files management and distribution platform)
- python3-datalad (data files management and distribution platform)
- dcm2niix
- dcm2niix (converts DICOM and PAR/REC files into the NIfTI format)
- dcmstack
- python3-dcmstack (DICOM to NIfTI conversion - python3 package)
- debruijn
- debruijn (De Bruijn cycle generator)
- dicomnifti
- dicomnifti (converts DICOM files into the NIfTI format)
- dipy
- python-dipy (Python library for the analysis of diffusion MRI datasets)
- python-dipy-doc (Python library for the analysis of diffusion MRI datasets – documentation)
- python-dipy-lib (Python library for the analysis of diffusion MRI datasets – extensions)
- diskcache
- python3-diskcache (Python module for Disk and file backed persistent cache)
- dmtcp
- eeglab11
- eeglab11-sampledata (sample EEG data for EEGLAB tutorials)
- matlab-eeglab11 (electrophysiological data analysis)
- freeipmi
- freeipmi (GNU implementation of the IPMI protocol)
- freeipmi-bmc-watchdog (GNU implementation of the IPMI protocol - BMC watchdog)
- freeipmi-common (GNU implementation of the IPMI protocol - common files)
- freeipmi-ipmidetect (GNU IPMI - IPMI node detection tool)
- freeipmi-ipmiseld (GNU IPMI - IPMI node detection tool)
- freeipmi-tools (GNU implementation of the IPMI protocol - tools)
- libfreeipmi-dev (GNU IPMI - development package)
- libfreeipmi16 (GNU IPMI - libraries)
- libipmiconsole-dev (GNU IPMI - ipmiconsole development package)
- libipmiconsole2 (GNU IPMI - Serial-over-Lan library)
- libipmidetect-dev (GNU IPMI - ipmidetect development package)
- libipmidetect0 (GNU IPMI - IPMI node detection library)
- libipmimonitoring-dev (GNU IPMI - ipmimonitoring development package)
- libipmimonitoring5a (GNU IPMI - Sensor monitoring library)
- fsl
- fsl (transitional dummy package)
- fsl-5.0 (transitional dummy package)
- fsl-5.0-core (analysis tools for FMRI, MRI and DTI brain imaging)
- fsl-core (metapackage for the latest version of FSL)
- fsl-feeds
- fsl-feeds (FSL Evaluation and Example Data Suite)
- fsldata
- fsl-5.0-doc-wiki (FSL documentation wiki)
- fsl-atlases (FSL’s MNI152 standard space stereotaxic brain atlases)
- fsl-bangor-cerebellar-atlas (probabilistic atlas of the human cerebellum)
- fsl-first-data (model data for FIRST subcortical brain segmentation)
- fsl-harvard-oxford-atlases (probabilistic atlas of human cortical brain areas (lateralized))
- fsl-harvard-oxford-cortical-lateralized-atlas (probabilistic atlas of human cortical and subcortical brain areas)
- fsl-jhu-dti-whitematter-atlas (human brain white-matter atlas)
- fsl-juelich-histological-atlas (brain atlas based on cyto- and myelo-architectonic segmentations)
- fsl-mni-structural-atlas (hand-segmented single-subject human brain atlas)
- fsl-mni152-templates (MNI152 stereotaxic brain templates for FSL)
- fsl-oxford-striatal-atlas (probabilistic atlas of the human brain’s sub-striatal regions)
- fsl-oxford-thalamic-connectivity-atlas (probabilistic brain atlas of thalamic white-matter connectivity)
- fsl-possum-data (sequence templates for the POSSUM MRI-simulator)
- fsl-resting-connectivity-parcellation-atlases (brain parcellations based on resting state connectivity)
- fsl-subthalamic-nucleus-atlas (probabilistic subthalamic nucleus atlas)
- fsl-talairach-daemon-atlas (structural anatomy labels of the Talairach atlas)
- fsleyes-props
- python-fsleyes-props (Python descriptor framework)
- fslmeta
- fsl-5.0-complete (metapackage for the entire FSL suite (tools and data))
- fsl-complete (metapackage for the entire FSL suite (tools and data))
- fslview
- fslview (viewer for (f)MRI and DTI data)
- fslview-doc (Documentation for FSLView)
- gifticlib
- gifti-bin (tools shipped with the GIFTI library)
- libgiftiio-dev (IO library for the GIFTI cortical surface data format)
- libgiftiio0 (IO library for the GIFTI cortical surface data format)
- git-annex-remote-rclone
- git-annex-remote-rclone (rclone-based git annex special remote)
- haxby2001
- haxby2001-faceobject (face and object processing in ventral temporal cortex (fMRI))
- haxby2001-faceobject-subject1 (face and object processing in ventral temporal cortex (fMRI))
- haxby2001-faceobject-subject2 (face and object processing in ventral temporal cortex (fMRI))
- haxby2001-faceobject-subject3 (face and object processing in ventral temporal cortex (fMRI))
- haxby2001-faceobject-subject4 (face and object processing in ventral temporal cortex (fMRI))
- haxby2001-faceobject-subject5 (face and object processing in ventral temporal cortex (fMRI))
- haxby2001-faceobject-subject6 (face and object processing in ventral temporal cortex (fMRI))
- hdmf
- python3-hdmf (Hierarchical Data Modeling Framework)
- heudiconv
- heudiconv (DICOM converter with support for structure heuristics)
- indexed-gzip
- python-indexed-gzip (fast random access of gzip files in Python)
- python3-indexed-gzip (fast random access of gzip files in Python)
- itksnap
- itksnap (semi-automatic segmentation of structures in 3D images)
- jist
- jist (Java Image Science Toolkit)
- json-tricks
- pypy-json-tricks (Python module with extra features for JSON files)
- python-json-tricks (Python module with extra features for JSON files)
- python3-json-tricks (Python module with extra features for JSON files)
- klustakwik
- klustakwik (automatic sorting of the samples (spikes) into clusters)
- libfreenect
- freenect (library for accessing Kinect device – metapackage)
- libfreenect-bin (library for accessing Kinect device – utilities and samples)
- libfreenect-demos (library for accessing Kinect device – dummy package)
- libfreenect-dev (library for accessing Kinect device – development files)
- libfreenect-doc (library for accessing Kinect device – documentation)
- libfreenect0.5 (library for accessing Kinect device)
- libgdf
- gdf-tools (IO library for the GDF – helper tools)
- libgdf-dev (IO library for the GDF – development library)
- libgdf0 (IO library for the GDF (general dataformat for biosignals))
- matlab-gdf (IO library for the GDF – Matlab interface)
- octave-gdf (IO library for the GDF – Octave interface)
- matlab-support
- matlab-support (distro integration for local MATLAB installations)
- matlab-support-dev (helpers for packages building MATLAB toolboxes)
- mclaren-rhesus-macaque-atlas
- mclaren-rhesus-macaque-atlas (MRI-based brain atlas of the rhesus macaque monkey)
- mdp
- python-mdp (Modular toolkit for Data Processing)
- python3-mdp (Modular toolkit for Data Processing)
- mipav
- mipav (quantitative analysis and visualization of medical images)
- mni-colin27
- mni-colin27-minc (Talairach stereotaxic space template)
- mni-colin27-nifti (Talairach stereotaxic space template)
- mni-icbm152-nlin
- mni-icbm152-nlin-2009a (MNI stereotaxic space human brain template)
- mni-icbm152-nlin-2009b (MNI stereotaxic space human brain template)
- mni-icbm152-nlin-2009c (MNI stereotaxic space human brain template)
- mpi4py
- python-mpi4py (bindings of the Message Passing Interface (MPI) standard)
- python-mpi4py-dbg (bindings of the MPI standard – debug symbols)
- python-mpi4py-doc (bindings of the MPI standard – documentation)
- python3-mpi4py (bindings of the Message Passing Interface (MPI) standard)
- python3-mpi4py-dbg (bindings of the MPI standard – debug symbols)
- mricron
- mricron (magnetic resonance image conversion, viewing and analysis)
- mricron-data (data files for MRIcron)
- mricron-doc (data files for MRIcron)
- mrtrix
- mrtrix (diffusion-weighted MRI white matter tractography)
- mrtrix-doc (documentation for mrtrix)
- mrtrix3
- mrtrix3 (diffusion-weighted MRI white matter tractography)
- mrtrix3-doc (documentation for mrtrix3)
- neo
- python3-neo (Python IO library for electrophysiological data formats)
- neurodebian
- neurodebian (neuroscience-oriented distribution - repository configuration)
- neurodebian-archive-keyring (neuroscience-oriented distribution - GnuPG archive keys)
- neurodebian-desktop (neuroscience-oriented distribution - desktop integration)
- neurodebian-dev (neuroscience-oriented distribution - development tools)
- neurodebian-freeze (nd_freeze tool to freeze APT sources to use snapshots)
- neurodebian-popularity-contest (neuroscience-oriented distribution - popcon integration)
- neurosynth
- python-neurosynth (large-scale synthesis of functional neuroimaging data)
- neurosynth-data
- fsl-neurosynth-atlas (neurosynth - atlas for use with FSL, all 525 terms)
- fsl-neurosynth-top100-atlas (neurosynth - atlas for use with FSL, top 100 terms)
- neurosynth-dataset (neurosynth - dataset of extracted terms and activations)
- nibabel
- python-nibabel-doc (documentation for NiBabel)
- python3-nibabel (Python3 bindings to various neuroimaging data formats)
- nifticlib
- libnifti-dev (IO libraries for the NIfTI-1 data format)
- libnifti-doc (NIfTI library API documentation)
- libnifti2 (IO libraries for the NIfTI-1 data format)
- nifti-bin (tools shipped with the NIfTI library)
- nilearn
- python-nilearn (fast and easy statistical learning on neuroimaging data (Python 2))
- python3-nilearn (fast and easy statistical learning on neuroimaging data (Python 3))
- nipy
- python-nipy-doc (documentation and examples for NiPy)
- python3-nipy (Analysis of structural and functional neuroimaging data)
- python3-nipy-lib (Analysis of structural and functional neuroimaging data (compiled modules))
- python3-nipy-lib-dbg (Analysis of structural and functional neuroimaging data (debug symbols))
- nipy-suite
- nipy-suite (Neuroimaging in Python)
- nipy-suite-doc (Neuroimaging in Python – documentation)
- nipype
- python-nipype-doc (Neuroimaging data analysis pipelines in Python3 – documentation)
- python3-nipype (Neuroimaging data analysis pipelines in Python3)
- nitime
- python-nitime-doc (timeseries analysis for neuroscience data (nitime) – documentation)
- python3-nitime (timeseries analysis for neuroscience data (nitime))
- numdiff
- numdiff (Compare similar files with numeric fields)
- numexpr
- python-numexpr (Fast numerical array expression evaluator for Python and NumPy)
- python3-numexpr (Fast numerical array expression evaluator for Python 3 and NumPy)
- odin
- libodin-dev (static libraries and header for ODIN sequences)
- mitools (view, convert and perform basic maths with medical image datasets)
- odin (develop, simulate and run magnetic resonance sequences)
- openelectrophy
- openelectrophy (data analysis framework for intra- and extra-cellular recordings)
- python-pyssdh (data analysis framework for intra- and extra-cellular recordings)
- openmeeg
- libopenmeeg-dev (openmeeg library – development files)
- libopenmeeg1 (library for solving EEG and MEG forward and inverse problems)
- openmeeg-tools (openmeeg library – command line tools)
- python-openmeeg (openmeeg library – Python bindings)
- openpyxl
- python-openpyxl (Python module to read/write OpenXML xlsx/xlsm files)
- python3-openpyxl (Python 3 module to read/write OpenXML xlsx/xlsm files)
- openwalnut
- libopenwalnut1 (Framework for multi-modal medical and brain data visualization)
- libopenwalnut1-dev (Development files for the OpenWalnut visualization framework)
- libopenwalnut1-doc (Developer documentation for the OpenWalnut visualization framework)
- openwalnut-modules (Loaders, algorithms and visualization modules for OpenWalnut)
- openwalnut-qt4 (Qt based user interface for OpenWalnut)
- pandas
- python-pandas (data structures for “relational” or “labeled” data)
- python-pandas-doc (documentation and examples for pandas)
- python-pandas-lib (low-level implementations and bindings for pandas)
- python3-pandas (data structures for “relational” or “labeled” data - Python 3)
- python3-pandas-lib (low-level implementations and bindings for pandas - Python 3)
- patsy
- python-patsy (statistical models in Python using symbolic formulas)
- python-patsy-doc (documentation and examples for patsy)
- python3-patsy (statistical models in Python using symbolic formulas)
- pprocess
- python-pprocess (elementary parallel programming for Python)
- psychopy
- psychopy (environment for creating psychology stimuli in Python)
- psychtoolbox-3
- octave-psychtoolbox-3 (toolbox for vision research – Octave bindings)
- psychtoolbox-3-common (toolbox for vision research – arch/interpreter independent part)
- psychtoolbox-3-dbg (toolbox for vision research – debug symbols for binaries)
- psychtoolbox-3-lib (toolbox for vision research – arch-specific parts)
- psychtoolbox-3-nonfree
- matlab-psychtoolbox-3 (toolbox for vision research – Matlab bindings)
- matlab-psychtoolbox-3-nonfree (toolbox for vision research – Matlab binary blobs)
- octave-psychtoolbox-3-nonfree (toolbox for vision research – Octave binary blobs)
- pycharm-community-sloppy
- pycharm-community-sloppy (PyCharm IDE (sloppy packaging))
- pydicom
- python-dicom (transitional package for python-pydicom)
- python-pydicom (DICOM medical file reading and writing (Python 2))
- python-pydicom-doc (DICOM medical file reading and writing (documentation))
- python3-dicom (transitional package for python3-pydicom)
- python3-pydicom (DICOM medical file reading and writing (Python 3))
- pyepl
- python-pyepl (module for coding psychology experiments in Python)
- python-pyepl-common (module for coding psychology experiments in Python)
- pyglet
- python3-pyglet (cross-platform windowing and multimedia library (Python 3))
- pymc
- python-pymc (Bayesian statistical models and fitting algorithms)
- python-pymc-doc (Bayesian statistical models and fitting algorithms)
- pymvpa
- python-mvpa (multivariate pattern analysis with Python)
- python-mvpa-doc (documentation and examples for PyMVPA)
- python-mvpa-lib (low-level implementations and bindings for PyMVPA)
- pymvpa2
- python-mvpa2 (multivariate pattern analysis with Python v. 2)
- python-mvpa2-doc (documentation and examples for PyMVPA v. 2)
- python-mvpa2-lib (low-level implementations and bindings for PyMVPA v. 2)
- pymvpa2-tutorialdata
- python-mvpa2-tutorialdata (data files for the PyMVPA tutorial)
- pynifti
- python-nifti (Python interface to the NIfTI I/O libraries)
- pynn
- python-pynn (simulator-independent specification of neuronal network models)
- pynwb
- python3-pynwb (Python library for working with Neurodata in the NWB format)
- pyoptical
- python-pyoptical (python interface to the CRS ‘OptiCAL’ photometer)
- pysurfer
- python-surfer (visualize Freesurfer’s data in Python)
- pytables
- python-tables (hierarchical database for Python based on HDF5)
- python-tables-data (hierarchical database for Python based on HDF5 - test data)
- python-tables-dbg (hierarchical database for Python based on HDF5 (debug extension))
- python-tables-doc (hierarchical database for Python based on HDF5 - documentation)
- python-tables-lib (hierarchical database for Python based on HDF5 (extension))
- python3-tables (hierarchical database for Python3 based on HDF5)
- python3-tables-dbg (hierarchical database for Python 3 based on HDF5 (debug extension))
- python3-tables-lib (hierarchical database for Python3 based on HDF5 (extension))
- python-etelemetry
- python3-etelemetry (lightweight Python3 client to communicate with the etelemetry server)
- python-git
- python-git-doc (Python library to interact with Git repositories - docs)
- python3-git (Python library to interact with Git repositories - Python 3.x)
- python-mne
- python-mne (Python modules for MEG and EEG data analysis)
- python-quantities
- python3-quantities (Library for computation of physical quantities with units, based on numpy)
- python-smmap
- python-smmap (pure Python implementation of a sliding window memory map manager)
- python3-smmap (pure Python implementation of a sliding window memory map manager)
- python-tornado
- python-tornado (scalable, non-blocking web server and tools)
- pyxid
- python3-pyxid (interface for Cedrus XID and StimTracker devices)
- pyxnat
- python-pyxnat (Interface to access neuroimaging data on XNAT servers)
- remake
- remake (GNU make fork with improved error reporting and debugging)
- reprozip
- python3-reprozip (modules for the ReproZip packer)
- python3-reprozip-dbg (debug extensions for the ReproZip packer)
- reprozip (tool for reproducing scientific experiments (packer))
- rnc2rng
- python3-rnc2rng (RELAX NG Compact to regular syntax conversion library)
- rorden-mri-tutorial
- rorden-mri-tutorial (Chris Rorden’s MRI analysis tutorial)
- rorden-mri-tutorial-data (data files for Chris Rorden’s MRI analysis tutorial)
- scikit-learn
- python-sklearn (Python modules for machine learning and data mining)
- python-sklearn-doc (documentation and examples for scikit-learn)
- python-sklearn-lib (low-level implementations and bindings for scikit-learn)
- python3-sklearn (Python modules for machine learning and data mining - Python 3)
- python3-sklearn-lib (low-level implementations and bindings for scikit-learn - Python 3)
- seaborn
- python-seaborn (statistical visualization library)
- python3-seaborn (statistical visualization library)
- sigviewer
- sigviewer (GUI viewer for biosignals such as EEG, EMG, and ECG)
- singularity-container
- singularity-container (container platform focused on supporting “Mobility of Compute”)
- skimage
- python-skimage (Python modules for image processing)
- python-skimage-doc (Documentation and examples for scikit-image)
- python-skimage-lib (Optimized low-level algorithms for scikit-image)
- python3-skimage (Python 3 modules for image processing)
- python3-skimage-lib (Optimized low-level algorithms for Python 3 scikit-image)
- spm8
- matlab-spm8 (analysis of brain imaging data sequences for Matlab)
- spm8-common (analysis of brain imaging data sequences)
- spm8-data (data files for SPM8)
- spm8-doc (manual for SPM8)
- spykeutils
- python-spykeutils (utilities for analyzing electrophysiological data)
- spykeviewer
- spykeviewer (graphical utility for analyzing electrophysiological data)
- sri24-atlas
- sri24-atlas (MRI-based brain atlas of normal adult human brain anatomy)
- stabilitycalc
- stabilitycalc (evaluate fMRI scanner stability)
- statsmodels
- python-statsmodels (Python module for the estimation of statistical models)
- python-statsmodels-doc (documentation and examples for statsmodels)
- python-statsmodels-lib (low-level implementations and bindings for statsmodels)
- python3-statsmodels (Python3 module for the estimation of statistical models)
- python3-statsmodels-lib (Python3 low-level implementations and bindings for statsmodels)
- stimfit
- python-stfio (Python module to read common electrophysiology file formats.)
- stimfit (Program for viewing and analyzing electrophysiological data)
- stimfit-dbg (Debug symbols for stimfit)
- testkraut
- testkraut (test and evaluate heterogeneous data processing pipelines)
- tigervnc
- tigervnc-common (Virtual network computing; Common software needed by clients and servers)
- tigervnc-scraping-server (Virtual network computing server software)
- tigervnc-standalone-server (Virtual network computing server software)
- tigervnc-viewer (Virtual network computing client software for X)
- tigervnc-xorg-extension (Virtual network computing server software)
- vmri-nonfree
- virtual-mri-nonfree (Virtual Magnetic Resonance Imager)
- voxbo
- voxbo (processing, statistical analysis, and display of brain imaging data)
- xppaut
- xppaut (Phase Plane Plus Auto: Solves many kinds of equations)