Packages for Ubuntu 14.04 “Trusty Tahr” (trusty)

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)
aghermann
  • aghermann (Sleep-research experiment manager)
ants
  • ants (advanced normalization tools for brain and image analysis)
bats
  • bats (bash automated testing system)
biosig4c++
brian
btrbk
  • btrbk (backup tool for btrfs subvolumes)
btrfs-tools
cde
  • cde (package everything required to execute a Linux command on another computer)
citeproc-py
cmtk
  • cmtk (Computational Morphometry Toolkit)
cnrun
  • cnrun-tools (NeuroML-capable neuronal network simulator (tools))
  • libcnrun2 (NeuroML-capable neuronal network simulator (shared lib))
  • libcnrun2-dev (NeuroML-capable neuronal network simulator (development files))
  • lua-cnrun (NeuroML-capable neuronal network simulator (Lua package))
condor
  • condor (transitional dummy package)
  • condor-dbg (transitional dummy package)
  • condor-dev (transitional dummy package)
  • condor-doc (transitional dummy package)
  • htcondor (distributed workload management system)
  • htcondor-dbg (distributed workload management system - debugging symbols)
  • htcondor-dev (distributed workload management system - development files)
  • htcondor-doc (distributed workload management system - documentation)
  • libclassad-dev (HTCondor classads expression language - development library)
  • libclassad7 (HTCondor classads expression language - runtime library)
connectome-workbench
contextlib2
convert3d
  • convert3d (tool(s) for converting 3D images between common file formats)
datalad
  • datalad (data files crawler and data distribution)
  • python-datalad (data files crawler and data distribution (Python 2))
dcm2niix
  • dcm2niix (converts DICOM and PAR/REC files into the NIfTI format)
dcmstack
debruijn
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)
dmtcp
  • dmtcp (Checkpoint/Restart functionality for Linux processes)
  • dmtcp-dbg (Debug package for dmtcp)
dockerpty
eeglab11
fail2ban
  • fail2ban (ban hosts that cause multiple authentication errors)
freeipmi
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-eddy-nonfree
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
gcalcli
  • gcalcli (Google Calendar Command Line Interface)
gccxml
  • gccxml (XML output extension to GCC)
  • libgccxml-dev (Libraries for building extension to gccxml output)
git-annex
  • git-annex-standalone (manage files with git, without checking their contents into git – standalone build)
git-annex-adapter
git-annex-metadata-gui
git-annex-remote-rclone
git-hub
  • git-hub (Git command line interface to GitHub)
glew
gmsl
  • gmsl (extra functions to extend functionality of GNU Makefiles)
heudiconv
  • heudiconv (DICOM converter with support for structure heuristics)
impressive
  • impressive (PDF presentation tool with eye candies)
incf-nidash-oneclick
init-system-helpers
insighttoolkit4
ismrmrd
jdcal
  • python-jdcal (Julian dates from proleptic Gregorian and Julian calendars)
  • python3-jdcal (Julian dates from proleptic Gregorian and Julian calendars)
joblib
lda
  • python-lda (Topic modeling with latent Dirichlet allocation for Python 3)
  • python3-lda (Topic modeling with latent Dirichlet allocation)
libfreenect
matlab-support
mdp
melview
  • fsl-melview (viewer for the output of FSL’s MELODIC)
mia
  • libmia-2.0-8 (library for 2D and 3D gray scale image processing)
  • libmia-2.0-8-dbg (Debug information for the MIA library)
  • libmia-2.0-dev (library for 2D and 3D gray scale image processing, development files)
  • libmia-2.0-doc (library for 2D and 3D gray scale image processing, documentation)
  • mia-tools (Command line tools for gray scale image processing)
  • mia-tools-dbg (Debugging information for the MIA command line tools)
  • mia-tools-doc (Cross-referenced documentation of the MIA command line tools)
mpi4py
mriconvert
  • mriconvert (medical image file conversion utility)
mricron
mridefacer
mrtrix
  • mrtrix (diffusion-weighted MRI white matter tractography)
  • mrtrix-doc (documentation for mrtrix)
msgpack-python
ncdu
  • ncdu (ncurses disk usage viewer)
netselect
  • netselect (speed tester for choosing a fast network server)
  • netselect-apt (speed tester for choosing a fast Debian mirror)
neurodebian
neurosynth
nibabel
nifti2dicom
nifticlib
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
nipype
nitime
  • python-nitime (timeseries analysis for neuroscience data (nitime))
  • python-nitime-doc (timeseries analysis for neuroscience data (nitime) – documentation)
nosexcover
nuitka
  • nuitka (Python compiler with full language support and CPython compatibility)
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)
openpyxl
openstack-pkg-tools
openwalnut
p7zip
  • p7zip (7zr file archiver with high compression ratio)
  • p7zip-full (7z and 7za file archivers with high compression ratio)
pandas
patool
  • patool (command line archive file manager)
patsy
pprocess
props
psignifit3
psychopy
  • psychopy (environment for creating psychology stimuli in Python)
psychtoolbox-3
psychtoolbox-3-nonfree
pycharm-community-sloppy
pydicom
pyepl
pygithub
pymc
  • python-pymc (Bayesian statistical models and fitting algorithms)
  • python-pymc-doc (Bayesian statistical models and fitting algorithms)
pymvpa2
pynn
  • python-pynn (simulator-independent specification of neuronal network models)
pysurfer
pytest
pytest-localserver
pytest-tornado
python-argcomplete
python-boto3
  • python-boto3 (Python interface to Amazon’s Web Services - Python 2.x)
  • python3-boto3 (Python interface to Amazon’s Web Services - Python 3.x)
python-click
  • python-click (Simple wrapper around optparse for powerful command line utilities - Python 2.7)
  • python3-click (Simple wrapper around optparse for powerful command line utilities - Python 3.x)
python-expyriment
python-funcsigs
python-future
  • python-future (single-source support for Python 3 and 2 - Python 2.x)
  • python-future-doc (Clean single-source support for Python 3 and 2 - doc)
  • python3-future (Clean single-source support for Python 3 and 2 - Python 3.x)
python-git
  • python-git (Python library to interact with Git repositories - Python 2.7)
  • python-git-doc (Python library to interact with Git repositories - docs)
  • python3-git (Python library to interact with Git repositories - Python 3.x)
python-gitdb
python-humanize
python-hypothesis
python-jsmin
  • python-jsmin (JavaScript minifier written in Python - Python 2.x)
  • python3-jsmin (JavaScript minifier written in Python - Python 3.x)
python-mne
  • python-mne (Python modules for MEG and EEG data analysis)
python-psutil
  • python-psutil (module providing convenience functions for managing processes)
  • python3-psutil (module providing convenience functions for managing processes (Python3))
python-py
  • pypy-py (Advanced Python development support library (PyPy))
  • python-py (Advanced Python development support library (Python 2))
  • python3-py (Advanced Python development support library (Python 3))
python-pydotplus
python-pygraphviz
  • python-pygraphviz (Python interface to the Graphviz graph layout and visualization package)
  • python-pygraphviz-dbg (Python interface to the Graphviz graph layout and visualization package (debug extension))
  • python-pygraphviz-doc (Python interface to the Graphviz graph layout and visualization package (doc))
  • python3-pygraphviz (Python interface to the Graphviz graph layout and visualization package (Python 3))
  • python3-pygraphviz-dbg (Python interface to the Graphviz graph layout and visualization package (py3k debug extension))
python-pyld
python-scrapy
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-w3lib
  • python-w3lib (Collection of web-related functions for Python (Python 2))
  • python3-w3lib (Collection of web-related functions for Python (Python 3))
python-werkzeug
python-whoosh
  • python-whoosh (pure-Python full-text indexing, search, and spell checking library (Python 2))
  • python-whoosh-doc (full-text indexing, search, and spell checking library (doc))
  • python3-whoosh (pure-Python full-text indexing, search, and spell checking library (Python 3))
python-wrapt
  • python-wrapt (decorators, wrappers and monkey patching. - Python 2.x)
  • python-wrapt-doc (decorators, wrappers and monkey patching. - doc)
  • python3-wrapt (decorators, wrappers and monkey patching. - Python 3.x)
rclone
remake
  • remake (GNU make fork with improved error reporting and debugging)
scikit-learn
seaborn
setuptools-scm
singularity-container
six
  • python-six (Python 2 and 3 compatibility library (Python 2 interface))
  • python-six-whl (Python 2 and 3 compatibility library (universal wheel))
  • python3-six (Python 2 and 3 compatibility library (Python 3 interface))
skimage
solar-eclipse
sparql-wrapper-python
sphinx-rtd-theme
spm8
spykeutils
spykeviewer
  • spykeviewer (graphical utility for analyzing electrophysiological data)
stabilitycalc
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)
tqdm
  • python-tqdm (fast, extensible progress bar for Python 2)
  • python3-tqdm (fast, extensible progress bar for Python 3 and CLI tool)
uftp
  • uftp (Encrypted multicast file transfer program)
utopia-documents
vmri-nonfree
vrpn
  • libvrpn-dev (Virtual Reality Peripheral Network (development files))
  • libvrpn0 (Virtual Reality Peripheral Network (client library))
  • libvrpnserver0 (Virtual Reality Peripheral Network (server library))
  • vrpn (Virtual Reality Peripheral Network (executables))
  • vrpn-dbg (Virtual Reality Peripheral Network (debugging symbols))
vtk-dicom

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