Packages for Ubuntu 18.04 “Bionic Beaver” (bionic)

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
annexremote
asciidoctor
bats
  • bats (bash automated testing system)

btrbk
  • btrbk (backup tool for btrfs subvolumes)

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))

connectome-workbench
convert3d
  • convert3d (tool(s) for converting 3D images between common file formats)

copyq
  • copyq (Advanced clipboard manager with editing and scripting features)

  • copyq-doc (Documentation and examples for CopyQ - HTML format)

  • copyq-plugins (Plugins for CopyQ)

dask
datalad
  • datalad (data files management and distribution platform)

  • python3-datalad (data files management and distribution platform)

datalad-container
dcm2niix
  • dcm2niix (converts DICOM and PAR/REC files into the NIfTI format)

dcmstack
debhelper
dh-octave
  • dh-octave (Debhelper-based infrastructure for building Octave add-on packages)

  • dh-octave-autopkgtest (script for the automatic testing of Octave add-on packages)

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
duecredit
dwz
  • dwz (DWARF compression tool)

edac-utils
  • edac-utils (report kernel-detected PCI and ECC RAM errors)

  • libedac-dev (report kernel-detected PCI and ECC RAM errors)

  • libedac1 (report kernel-detected PCI and ECC RAM errors)

  • libedac1-dbg (report kernel-detected PCI and ECC RAM errors)

exempi
  • exempi (command line tool to manipulate XMP metadata)

  • libexempi-dev (library to parse XMP metadata (Development files))

  • libexempi3 (library to parse XMP metadata (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)

fsleyes
fsleyes-props
fsleyes-widgets
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))

fslpy
git
  • git (fast, scalable, distributed revision control system)

  • git-all (fast, scalable, distributed revision control system (all subpackages))

  • git-cvs (fast, scalable, distributed revision control system (cvs interoperability))

  • git-daemon-run (fast, scalable, distributed revision control system (git-daemon service))

  • git-daemon-sysvinit (fast, scalable, distributed revision control system (git-daemon service))

  • git-doc (fast, scalable, distributed revision control system (documentation))

  • git-el (fast, scalable, distributed revision control system (emacs support))

  • git-email (fast, scalable, distributed revision control system (email add-on))

  • git-gui (fast, scalable, distributed revision control system (GUI))

  • git-man (fast, scalable, distributed revision control system (manual pages))

  • git-mediawiki (fast, scalable, distributed revision control system (MediaWiki remote helper))

  • git-svn (fast, scalable, distributed revision control system (svn interoperability))

  • gitk (fast, scalable, distributed revision control system (revision tree visualizer))

  • gitweb (fast, scalable, distributed revision control system (web interface))

git-annex
  • git-annex-standalone (manage files with git, without checking their contents into git – standalone build)

git-annex-remote-rclone
glm
  • libglm-dev (C++ library for OpenGL GLSL type-based mathematics)

  • libglm-doc (documentation for the OpenGL Mathematics (GLM) library)

hdmf
heudiconv
  • heudiconv (DICOM converter with support for structure heuristics)

indexed-gzip
jasp
  • jasp (Bayesian statistics made accessible)

joblib
libfreenect
libqtpas
melview
  • fsl-melview (viewer for the output of FSL’s MELODIC)

mridefacer
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)

msgpack-python
ncdu
  • ncdu (ncurses disk usage viewer)

neo
  • python3-neo (Python IO library for electrophysiological data formats)

neurodebian
nibabel
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))

nipype
nitime
  • python-nitime-doc (timeseries analysis for neuroscience data (nitime) – documentation)

  • python3-nitime (timeseries analysis for neuroscience data (nitime))

nuitka
  • nuitka (Python compiler with full language support and CPython compatibility)

openstack-pkg-tools
openxr-sdk-source
pandas
patool
  • patool (command line archive file manager)

patsy
pprocess
props
psychtoolbox-3
psychtoolbox-3-nonfree
pycharm-community-sloppy
pydicom
pydot
pygithub
pymvpa2
pynwb
  • python3-pynwb (Python library for working with Neurodata in the NWB format)

pyrsistent
python-babel
  • python-babel (tools for internationalizing Python applications - Python 2.x)

  • python-babel-doc (tools for internationalizing Python applications - documentation)

  • python-babel-localedata (tools for internationalizing Python applications - locale data files)

  • python3-babel (tools for internationalizing Python applications - Python 3.x)

python-boto
  • python-boto (Python interface to Amazon’s Web Services - Python 2.x)

  • python3-boto (Python interface to Amazon’s Web Services - Python 3.x)

python-bz2file
  • python-bz2file (Python library for reading and writing bzip2-compressed files)

  • python3-bz2file (Python3 library for reading and writing bzip2-compressed files)

python-exif
  • python-exif (Python library to extract Exif data from TIFF and JPEG files)

  • python3-exif (Python library to extract Exif data from TIFF and JPEG files)

python-fasteners
python-filelock
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-gitdb
python-httpretty
python-hypothesis
python-importlib-metadata
python-jsonschema
python-pyfakefs
  • python3-pyfakefs (fake fs that mocks the Python file system modules - Python 3)

python-pyperclip
python-quantities
  • python3-quantities (Library for computation of physical quantities with units, based on numpy)

python-sphinxcontrib.apidoc
python-urllib3
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)

python-xmp-toolkit
python-zipp
  • python3-zipp (pathlib-compatible Zipfile object wrapper - Python 3.x)

pyxid
  • python3-pyxid (interface for Cedrus XID and StimTracker devices)

rclone
reprozip
requests
  • python-requests (elegant and simple HTTP library for Python2, built for human beings)

  • python-requests-whl (elegant and simple HTTP library for Python, built for human beings)

  • python3-requests (elegant and simple HTTP library for Python3, built for human beings)

s3cmd
  • s3cmd (command-line Amazon S3 client)

scikit-learn
singularity-container
skimage
sphinx-gallery
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)

svgtune
  • svgtune (tool to generate a set of .svg files out of a single .svg file)

sympy
vowpal-wabbit
  • libvw-dev (fast and scalable online machine learning algorithm - development files)

  • libvw0 (fast and scalable online machine learning algorithm - dynamic library)

  • vowpal-wabbit (fast and scalable online machine learning algorithm)

  • vowpal-wabbit-dbg (fast and scalable online machine learning algorithm - debug files)

  • vowpal-wabbit-doc (fast and scalable online machine learning algorithm - documentation)

xlwt
  • python-xlwt (module for writing Microsoft Excel spreadsheet files - Python 2.7)

  • python-xlwt-doc (module for writing Microsoft Excel spreadsheet files - doc)

  • python3-xlwt (module for writing Microsoft Excel spreadsheet files - Python 3.x)

youtube-dl
  • youtube-dl (downloader of videos from YouTube and other sites)

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