summary
Imaging
Debian-Med imaging packages
This meta package will install Debian packages which might be useful in medical
image processing.
It installs several packages supporting DICOM (Digital Imaging and
Communications in Medicine) which is the de-facto standard for medical
image management. The standard defines data structures and services for
the exchange of medical images and related information. The latest release
has been published in 2004 and consists of 18 parts.
For more information, you can visit the NEMA homepage http://medical.nema.org/
or download the current DICOM standard as PDF files from
http://www.dclunie.com/dicom-status/status.html .
The list to the right includes various software projects which are of some interest to the Debian-Med Project. Currently, only a few of them are available as Debian packages. It is our goal, however, to include all software in Debian-Med which can sensibly add to a high quality Custom Debian Distribution.
For a better overview of the project's availability as a Debian package, each head row has a color code according to this scheme:
If you discover a project which looks like a good candidate for Debian-Med to you, or if you have prepared an inofficial Debian package, please do not hesitate to send a description of that project to the Debian-Med mailing list
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Debian-Med imaging packages
Official Debian packages
Aeskulap
medical image viewer and DICOM network client
http://aeskulap.nongnu.org
Maintainer: Debian-Med Packaging Team
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Version: 0.2.2b1
License: DFSG free
Official Debian package —
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| Aeskulap is able to load a series of special images stored in the DICOM
format for review. Additionally it is able to query and fetch DICOM
images from archive nodes (also called PACS) over the network. Aeskulap
tries to achieve a full open source replacement for commercially
available DICOM viewers.
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Amide
software for Medical Imaging
http://amide.sourceforge.net/
Maintainer: Dominique Belhachemi
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Version: 0.9.1
License: DFSG free
Official Debian package —
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| AMIDE: (Amide's a Medical Imaging Data Examiner)
AMIDE is a tool for viewing and analyzing medical image data sets.
It's capabilities include the simultaneous handling of multiple data
sets imported from a variety of file formats, image fusion, 3D region
of interest drawing and analysis, volume rendering, and rigid body
alignments.
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Ctsim
Computed tomography simulator
Homepage not available
Maintainer: Kevin M. Rosenberg
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Version: 4.5.5
License: DFSG free
Official Debian package —
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CTSim provides an interactive computed tomography simulator. Computed
tomography is the technique of estimating the interior of an object
by measuring x-ray absorption through that object.
CTSim has both command-line tools and a graphical user interface.
CTSim has very educational trace modes for viewing the data
collection simulation as well as the reconstruction.
Home page: http://www.ctsim.org/
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Dcmtk
The OFFIS DICOM toolkit command line utilities
Homepage not available
Maintainer: Juergen Salk
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Version: 3.5.4
License: DFSG free
Official Debian package —
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DCMTK includes a collection of libraries and applications for examining,
constructing and converting DICOM image files, handling offline media,
sending and receiving images over a network connection, as well as
demonstrative image storage and worklist servers.
This package contains the DCMTK utility applications.
Note: This version was compiled with libssl support.
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Dicomnifti
converts DICOM files into the NIfTI format
http://cbi.nyu.edu/software/dinifti.php
Maintainer: Michael Hanke
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Version: 2.28.11
License: DFSG free
Official Debian package —
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The dinifti program converts MRI images stored in DICOM format to NIfTI
format. The NIfTI format is thought to be the new standard image format for
medical imaging and can be used with for example with FSL, AFNI, SPM, Caret
or Freesurfer.
dinifti converts single files, but also supports fully automatic batch
conversions of complete dicomdirs. Additionally, converted NIfTI files can
be properly named, using image series information from the DICOM files.
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Dicomnifti
converts DICOM files into the NIfTI format
http://cbi.nyu.edu/software/dinifti.php
Maintainer: Michael Hanke
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Version: 2.28.11
License: DFSG free
Official Debian package —
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The dinifti program converts MRI images stored in DICOM format to NIfTI
format. The NIfTI format is thought to be the new standard image format for
medical imaging and can be used with for example with FSL, AFNI, SPM, Caret
or Freesurfer.
dinifti converts single files, but also supports fully automatic batch
conversions of complete dicomdirs. Additionally, converted NIfTI files can
be properly named, using image series information from the DICOM files.
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Fsl
analysis tools for FMRI, MRI and DTI brain imaging
http://www.fmrib.ox.ac.uk/fsl/
Maintainer: Michael Hanke
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Version: 4.0.4
License: non-free
Official Debian package —
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FSL is a comprehensive library of image analysis and statistical tools
for FMRI, MRI and DTI brain imaging data.
FSL provides an easy to use GUI.
FSL interoperates well with other brain imaging related software. This includes
Caret, FreeSurfer (cortical flattening and modelling).
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Fslview
viewer for (f)MRI and DTI data
http://www.fmrib.ox.ac.uk/fsl/fslview
Maintainer: Michael Hanke
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Version: 3.0+4.0.2
License: DFSG free
Official Debian package —
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This package provides a viewer for 3d and 4d MRI data as well as DTI images.
FSLView is able to display ANALYZE and NIFTI files. The viewer supports
multiple 2d viewing modes (orthogonal, lightbox or single slices), but also
3d volume rendering. Additionally FSLView is able to visualize timeseries and
can overlay metrical and stereotaxic atlas data.
FSLView is part of FSL.
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Gwyddion
Scanning Probe Microscopy visualization and analysis
http://gwyddion.net/
Maintainer: Jan Beyer
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Version: 2.9
License: DFSG free
Official Debian package —
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Gwyddion is a modular program for Scanning Probe Microscopy (SPM) data
visualization and analysis. It is primarily intended for analysis of height
field data obtained by microscopy techniques like
Atomic Force Microscopy (AFM),
Magnetic Force Microscopy (MFM),
Scanning Tunneling Microscopy (STM),
Near-field Scanning Optical Microscopy (SNOM or NSOM)
and others. However, it can be used for arbitrary height field and
image analysis.
This package contains the main application and its modules.
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Imagej
Image processing program inspired by NIH Image for the Macintosh
Homepage not available
Maintainer: Paolo Ariano
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Version: 1.40a
License: DFSG free, but needs non-free components
Official Debian package —
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It can display, edit, analyze, process, save and print 8-bit, 16-bit and
32-bit images. It can read many image formats including TIFF, GIF, JPEG,
BMP, DICOM, FITS and "raw". It supports "stacks", a series of images that
share a single window.
It can calculate area and pixel value statistics of user-defined
selections. It can measure distances and angles. It can create density
histograms and line profile plots. It supports standard image processing
functions such as contrast manipulation, sharpening, smoothing, edge
detection and median filtering.
Spatial calibration is available to provide real world dimensional
measurements in units such as millimeters. Density or gray scale
calibration is also available.
ImageJ is developed by Wayne Rasband (wayne@codon.nih.gov), is at the
Research Services Branch, National Institute of Mental Health, Bethesda,
Maryland, USA.
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Imagemagick
image manipulation programs
http://www.imagemagick.org/
Maintainer: Luciano Bello
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Version: 7:6.3.7.9.dfsg1
License: DFSG free
Official Debian package —
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Imagemagick is a set of programs to manipulate various image formats
(JPEG, TIFF, PhotoCD, PBM, XPM, etc...). All manipulations can
be achieved through shell commands as well as through an X11 graphical
interface (display).
Possible effects: colormap manipulation, channel operations, thumbnail
creation, image annotation, limited drawing, image distortion, etc...
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Imview
Image viewing and analysis application
http://www.cmis.csiro.au/Hugues.Talbot/imview/
Maintainer: Teemu Ikonen
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Version: 1.1.9c
License: DFSG free
Official Debian package —
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Imview is an application which
* Displays a large number of image formats.
* Displays 2D or 3D (as slices) images with a very good zoom and pan
feature.
* Works with multi-spectral, time series or multi-page documents (e.g.:
Satellite images, TIFF stacks, animated GIFs and heterogeneous
multi-component files).
* Displays all pixel types (1-bit to 64-bit data, integer or floating
point).
* Arbitrary 1-D profile of 2-D images (or of 2-D slices of 3-D images) can
be displayed.
* Has support for arbitrary colourmaps for all pixel types (i.e.: false
colour display).
* Has standard image manipulation facilities (brightness/contrast, gamma,
zoom, crop, rotation, etc).
* Can be controlled remotely via sockets and text commands (for easy
integration into various image analysis systems).
* Images can be uploaded into Imview via sockets or shared memory.
* And much more!
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Libvolpack1
fast volume rendering library
http://graphics.stanford.edu/software/volpack/
Maintainer: Debian-Med Packaging Team
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Version: 1.0b3
License: DFSG free
Official Debian package —
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VolPack is a software library for fast, high-quality volume rendering with
this features:
* Renders data sampled on a regular, three-dimensional grid.
* Supports user-specified transfer functions for both opacity and color.
* Provides a shading model with directional light sources, multiple material
types with different reflective properties, depth cueing, and shadows.
* Produces color (24 bits/pixel) or grayscale (8 bits/pixel) renderings,
with or without an alpha channel.
* Supports arbitrary affine view transformations.
* Supports a flexible data format that allows an arbitrary C structure to be
associated with each voxel.
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Medcon
Medical Image (DICOM, ECAT, ...) conversion tool
http://xmedcon.sourceforge.net/
Maintainer: Roland Marcus Rutschmann
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Version: 0.10.4
License: DFSG free
Official Debian package —
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This project stands for Medical Image Conversion. Released under the
(L)GPL, it comes with the full C-source code of the library, a
flexible command line utility and a neat graphical front-end using
the GTK+ toolkit. The currently supported formats are: Acr/Nema 2.0,
Analyze (SPM), DICOM 3.0, InterFile 3.3 and PNG.
The program also allows to read unsupported files without
compression, to print pixel values or to extract/reorder specified
images. It is possible to retrieve the raw binary/ascii image arrays
or to write PNG for desktop applications.
This is the command line tool for batch processing.
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Minc-tools
MNI medical image format tools
http://www.bic.mni.mcgill.ca/software/
Maintainer: Debian-Med Packaging Team
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Version: 2.0.14
License: DFSG free
Official Debian package —
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This package contains tools to manipulate MINC files.
The Minc file format is a highly flexible medical image file format
built on top of the NetCDF generalized data format. The format is
simple, self-describing, extensible, portable and N-dimensional, with
programming interfaces for both low-level data access and high-level
volume manipulation. On top of the libraries is a suite of generic
image-file manipulation tools. The format, libraries and tools are
designed for use in a medical-imaging research environment: they are
simple and powerful and make no attempt to provide a pretty interface
to users.
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Nifti-bin
tools shipped with the NIfTI library
http://niftilib.sourceforge.net
Maintainer: Michael Hanke
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Version: 1.0.0
License: DFSG free
Official Debian package —
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Niftilib is a set of i/o libraries for reading and writing files in the
NIfTI-1 data format. NIfTI-1 is a binary file format for storing medical
image data, e.g. magnetic resonance image (MRI) and functional MRI (fMRI)
brain images.
This package provides the tools that are shipped with the library
(nifti_tool, nifti_stats and nifti1_test). Additionally it contains some
helper scripts for image file handling as well as a TCL wrapper for these
scripts.
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Pngquant
PNG (Portable Network Graphics) image optimising utility
http://www.libpng.org/pub/png/apps/pngquant.html
Maintainer: Nelson A. de Oliveira
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Version: 1.0
License: DFSG free
Official Debian package —
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pngquant is a command-line conversion utility to quantize and dither truecolor
PNG images, especially those with a full alpha channel, down to 8-bit (or
smaller) RGBA-palette PNGs. Such images are usually two to four times smaller
than the full 32-bit versions, and partial transparency is preserved quite
nicely. This makes pngquant especially useful both for Web sites and for
PlayStation 2 development, where one of the texture formats is
RGBA-palette-based (though not PNG-compressed).
This is the same technique used for many of the images on the Miscellaneous
Transparent PNGs page (http://www.libpng.org/pub/png/pngs-img.html), and
the results are often indistinguishable from the original, truecolor PNG
images.
Optimizers (like pngcrush and optipng) optimize the compression, usually
losslessly, while pngquant quantizes colors down to 256 (or fewer) distinct
RGBA combinations, which is lossy.
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Python-nifti
Python interface to the NIfTI I/O libraries
http://niftilib.sourceforge.net/pynifti/
Maintainer: Michael Hanke
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Version: 0.20070930.1
License: DFSG free
Official Debian package —
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| Using PyNIfTI one can easily read and write NIfTI and ANALYZE images from
within Python. The NiftiImage class provides Python-style access to the full
header information. Image data is made available via NumPy arrays.
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Xmedcon
Medical Image (DICOM, ECAT, ...) conversion tool
http://xmedcon.sourceforge.net/
Maintainer: Roland Marcus Rutschmann
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Version: 0.10.4
License: DFSG free
Official Debian package —
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This project stands for Medical Image Conversion. Released under the
(L)GPL, it comes with the full C-source code of the library, a
flexible command line utility and a neat graphical front-end using
the GTK+ toolkit. The currently supported formats are: Acr/Nema 2.0,
Analyze (SPM), DICOM 3.0, InterFile 3.3 and PNG.
The program also allows to read unsupported files without
compression, to print pixel values or to extract/reorder specified
images. It is possible to retrieve the raw binary/ascii image arrays
or to write PNG for desktop applications.
This is the program version for X based on GTK+. Processes only one
file at a time.
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Experimental or unofficial Debian packages, projects with packaging stuff in SVN
Afni — wnpp
environment for processing and displaying functional MRI data
http://afni.nimh.nih.gov/
Responsible: Michael Hanke
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Version: N/A
License: GPL
Unofficial Debian package
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| AFNI is an environment for processing and displaying functional
MRI data. It provides a complete analysis toolchain, including
3D cortical surface models, and mapping of volumetric data (SUMA).
In addition to its own format AFNI understands the NIfTI format and is
therefore easily usable in combination with FSL and Freesurfer.
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Caret — wnpp
Computerized Anatomical Reconstruction and Editing
http://brainmap.wustl.edu/caret/
Responsible: Michael Hanke
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Version: N/A
License: GPL
Unofficial Debian package
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This software allows for viewing and manipulating surface
reconstructions of the cerebral and cerebellar cortex, viewing
volumes and for displaying experimental data on the surfaces and
volumes.
Caret can download and use stereotaxic atlases (human, monkey, mouse
and rat) from an open online database.
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Opendicom.net
API to DICOM in C# for Mono
http://opendicom.sourceforge.net/
Responsible: Albert Gnandt
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Version: N/A
License: LGPL
Unofficial Debian package
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The openDICOM.NET project implements a new approach towards DICOM
(Digital Imaging and Communications in Medicine) libraries. DICOM is
a worldwide standard in Medical IT and is provided by the National
Electrical Manufacturers Assocation (NEMA). This standard specifies
the way medical images and meta data like study or patient related
data is stored and communicated over different digital medias. Thus,
DICOM is a binary protocol and data format.
The openDICOM# Class Libary, main part of the openDICOM.NET project,
provides an API to DICOM in C# for Mono and the .NET Framework. It is
a completely new implementation of DICOM. In contrast to other
similar libraries the intention of this implementation is to provide
a clean classification with support of unidirectional DICOM data
streaming. Another implemented goal is the support of DICOM as
XML. This is not standard conform but very use- and powerful within
software development, storage and manipulation. Currently, full read
support of DICOM output stream and full write support to XML is
supposed to be provided. The entire DICOM content can be accessed as
sequence or as tree of class instances. Latter is the default
representation of DICOM content by the library.
The openDICOM.NET Utils are a collection of console tools for working
with the needed data dictionaries in different data formats (binary
and textual), query of ACR-NEMA (prior DICOM standard) and DICOM
files and transcoding them into image formats like JPEG and XML
files. These utils are written in C# for Mono and the .NET Framework
and are using the openDICOM# API for processing.
The openDICOM.NET Navigator recapitulates the openDICOM.NET Utils in
form of a GTK# GUI. It provides different views with focus on DICOM
data sets and visualization. Connectivity to GIMP is also given for
single image processing purpose as well as the possibility to run
through multi-frame images like a movie.
The openDICOM.NET Beagle Filter Plugin increases the usability of
ACR-NEMA and DICOM query within your desktop. It makes DICOM content
overall indexable for retrieval. The Beagle search engine relies on
Mono/.NET and works in the background of your system, but is able to
detect content changes in realtime (depending on your configuration).
All GUI applications focus the popular GNOME desktop, but are 100%
platform independent by relying on Mono.
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Debian packages not available
Bioimagesuite
integrated image analysis software suite
http://www.bioimagesuite.org/
Responsible: no one
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License: GPL
Debian package not available |
BioImage Suite has extensive capabilities for both neuro/cardiac
and abdominal image analysis and state of the art visualization.
Many packages are available that are highly extensible, and provide
functionality for image visualization and registration, surface
editing, cardiac 4D multi-slice editing, diffusion tensor image
processing, mouse segmentation and registration, and much more. It
can be intergrated with other biomedical image processing software,
such as FSL and SPM. This site provides information, downloads,
documentation, and other resources for users of the software.
BioImage Suite was developed at Yale University and has been
extensively used at different labs at Yale since 2004.
There is a forum at BioImage Suite site for discussion of
compiling it from source and packaging issues at
http://research.yale.edu/bioimagesuite/forum/index.php?board=12.0
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Blox
medical imaging and visualization program
http://sourceforge.net/projects/blox/
Responsible: no one
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License: GPL
Debian package not available |
| The purpose of the project is to develop a quantitative medical
imaging and visualization program for use on brain MR, DTI and MRS
data. It is a joint project of the Kennedy Krieger Institute and the
Johns Hopkins University, Psychiatric Neuroimaging Lab
(http://pni.med.jhu.edu/methods/morph.htm).
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Brainvisa
image processing factory for MR images
http://brainvisa.info/
Responsible: no one
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License: Free? (CeCill License)
Debian package not available |
| BrainVISA is a software, which embodies an image processing
factory. A simple control panel allows the user to trigger some
sequences of treatments on series of images. These treatments are
performed by calls to command lines provided by different
laboratories. These command lines, hence, are the building blocks on
which are built the assembly lines of the factory. BrainVISA is
distributed with a toolbox of building blocks dedicated to the
segmentation of T1-weighted MR images. The product of the main
assembly line made up from this toolbox is the following: grey/white
classification for Voxel Based Morphometry, Meshes of each hemisphere
surface for visualization purpose, Spherical meshes of each
hemisphere white matter surface, a graph of the cortical folds, a
labeling of the cortical folds according to a nomenclature of the
main sulci.
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Conquest-dicom-server
full featured DICOM server
http://www.xs4all.nl/~ingenium/dicom.html
Responsible: no one
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License: Public domain
Debian package not available |
A full featured DICOM server that has been developed based on and
heavily extending the public domain UCDMC DICOM code.
Some possible applications of the Conquest DICOM software are:
* DICOM training and testing
* Demonstration and research image archives
* Image format conversion from a scanner with DICOM network access
* DICOM image viewing and slide making
* DICOM image selection, (limited) editing, and splitting and merging of series
* Advanced automatic image forwarding and (de)compression
* DICOM caching and archive merging
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Dcm4che
collection of open source applications and utilities healthcare enterprise
http://www.dcm4che.org/
Responsible: no one
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License: LGPL, MPL, Apache, other (also non-free)
Debian package not available |
At the core of the dcm4che project is a robust implementation of the
DICOM standard. The dcm4che-1.x DICOM toolkit is used in many production
applications across the world, while the current (2.x) version of the
toolkit has been re-architected for high performance and flexibility.
Also contained within the dcm4che project is dcm4chee (the extra 'e'
stands for 'enterprise'). dcm4chee is an Image Manager/Image Archive
(according to IHE). The application contains the DICOM, HL7 services
and interfaces that are required to provide storage, retrieval, and
workflow to a healthcare environment. dcm4chee is pre-packaged and
deployed within the JBoss application server. By taking advantage of
many JBoss features (JMS, EJB, Servlet Engine, etc.), and assuming the
role of several IHE actors for the sake of interoperability, the
application provides many robust and scalable services.
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Dicom3tools
handling offline files of DICOM 3 attributes
http://www.dclunie.com/dicom3tools.html
Responsible: no one
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License: BSD
Debian package not available |
Tools and libraries for handling offline files of DICOM 3 attributes,
and conversion of proprietary formats to DICOM 3. Can handle older
ACR/NEMA format data, and some proprietary versions of that such as
SPI.
It has extremely limited X display capability and no networking
code that is why this is not a complete DICOM implementation.
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Dicomscope
DICOMscope is a free DICOM viewer which can display uncompressed,
http://dicom.offis.de/dscope.php.en
Responsible: no one
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License: Has to be clarified
Debian package not available |
monochrome DICOM images from all modalities and which supports
monitor calibration according to DICOM part 14 as well as
presentation states. DICOMscope offers a print client (DICOM Basic
Grayscale Print Management) which also implements the optional
Presentation LUT SOP Class. The development of this prototype was
commissioned by the "Committee for the Advancement of DICOM" and
demonstrated at the European Congress of Radiology ECR 1999. An
enhanced version was developed for the "DICOM Display Consistency
Demonstration" at RSNA InfoRAD 1999. The current release 3.5.1 has
been demonstrated at ECR 2001 and contains numerous extensions,
including a print server, support for encrypted DICOM communication,
digital signatures and structured reporting.
DICOMscope is not meant as a competition for commercial DICOM
viewers. The application is rather a feasibility study for DICOM
presentation states. The program is not appropriate to be used in a
clinical environment, e.g. for reporting.
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Drjekyll
interactive voxel editor for viewing and editing three-dimensional images
http://drjekyll.sourceforge.net
Responsible: no one
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License: GPL
Debian package not available |
| It is specifically aimed at postprocessing of segmented datasets,
but offers some functionality for raw data as well.
Voxel elements (=voxels) and pixel ("picture element") are viewed
as data sets and can be processed by this program as kind of
a final polishing process.
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Ecg2png
convert scanned electrocardiograms into PNG format
#
Responsible: no one
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License: GPL
Debian package not available |
This program is designed to convert scanned 12-lead
electrocardiograms into PNG format and a web-friendly image size. It
assumes that the electrocardiogram (ECG) is printed with a black line
on white paper with a red grid.
The problems this program is designed to solve are (1) an ECG scanned
at relatively high resolution (300 to 600 dots per inch) imposes a
substantial load on the web browser because it contains about 6
million pixels which may require 18 to 24 MB of RAM to store for
display. Also, (2) typical scanners convert a clean paper ECG into a
multitude of colors, include green and blue. The resulting file
cannot be compressed efficiently because it does not contain as much
redundancy, and thus takes more time to transmit over low-speed
network connections.
Remark: The homepage of this project that used to be at
http://www.cardiothink.com/downloads/ecg2png/ vanished but the source
can be downloaded fro instance from
http://www.freshports.org/graphics/ecg2png/ .
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Kradview
the free DICOM viewer for Linux
http://www.orcero.org/irbis/kradview/
Responsible: no one
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License: GPLv3
Debian package not available |
Kradview is a GPLed viewer of images obtained for some different
sources: X-ray, NMR and DICOM-compatible imaging devices that runs on
free operating systems. Its aim is a easy to use DICOM viewer with
instant rendering of images, no matter the size and the zoom of the
DICOM image. It covers the "let's see the the X-ray image" need of
the medical professional.
Kradview as been developed in C and C++ using KDE libraries. The
parsing, rendering, and processing routines has been developed in C,
and the graphical interface has been developed in C++ and includes
the former routines with "extern C" for fast use.
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Libvista2
software environment for computer vision research
http://mia.sourceforge.net/
Responsible: no one
|
License: GPL
Debian package not available |
Vista is a software environment for computer vision research. It is
designed to support not only images, but also edge sets, camera models,
and more complex data structures. Vista includes libraries of common
computer vision and image processing algorithms. It is written in
ANSI C, for UNIX platforms running X Windows, and it is freely available.
The original development was done at University of British Columbia
(http://www.cs.ubc.ca/nest/lci/vista/vista.html).
Because the development was stalled by the original authors the
development continued in the "Tools for Medical Image Analysis"
framework (http://mia.sourceforge.net/) which is maintained by
Max Planck Institute of Cognitive Neuroscience
(http://www.cns.mpg.de/).
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Maris
package suite for Radiological Workflow
http://maris.homelinux.org/
Responsible: no one
|
License: GPL
Debian package not available |
| The MARiS Project goal is to realize a package suite for Radiological
Workflow using Open Source tools and technologies in according with
IHE guidelines. The architecture of the single packages is based on
the concept of IHE actor: this is very useful to develope a system
that is an ensamble of single pieces that cooperate together using
IHE profiles.
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Mesa-test-tools
IHE Test Software for Radiology
http://ihedoc.wustl.edu/mesasoftware/
Responsible: no one
|
License: free
Debian package not available |
The MESA software release which is available at
http://ihedoc.wustl.edu/mesasoftware/10.15.0/dist/ provides several
tools that might cover a wide range of applications for
Integrating the Healthcare Enterprise (IHE) testing.
Another important element of the IHE testing process is the set of
software tools HIMSS and RSNA have commissioned. Developed by the
Electronic Radiology Laboratory at the Mallinckrodt Institute of
Radiology, Washington University of St. Louis, the MESA tools are
designed for use by participating companies in implementing IHE
capabilities in their systems and preparing for the Connectathon. Their
purpose is to provide communication partners, test data and test plans
to allow organizations to provide a baseline level of testing as they
implement the IHE Technical Framework. These tools are made available to
participants during the period of an IHE demonstration year and are then
released into the public domain at the end of that cycle. The latest
version of the MESA Test Tools available in the public domain can be
found here.
This kind of software is definitively valuable for information systems
vendors and imaging systems vendors.
Because the CTN Debian package is based on an upstream dead project
these tools should have a high priority for packaging because the
CTN homepage http://erl.wustl.edu/research/dicom/ctn.html says:
"The CTN software is also embedded within the MESA tools. The version
of CTN software in those tools does not have a separate release number
but is more current than version 3.0.6."
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Opensourcepacs
medical image referral, archiving, routing and viewing system
http://www.mii.ucla.edu/index.php/MainSite:OpenSourcePacsHome
Responsible: no one
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License: GPL
Debian package not available |
OpenSourcePACS is a free, open source image referral, archiving,
routing and viewing system. It adds functionality beyond conventional
PACS by integrating wet read functions, implemented through DICOM
Presentation State and Structured Reporting standards.
In its first release, OpenSourcePACS delivers a complete wet read
system, enabling an imaging clinic or hospital to offer its services
over the web to physicians within or outside the institution. In
future releases, we hope to incorporate more RIS (dictation,
transcription, and reporting) functionality.
OpenSourcePACS is a product of the UCLA Medical Imaging Informatics
group (http://www.mii.ucla.edu/).
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Piano
medical image processing library for surgical planning
http://mbi.dkfz-heidelberg.de/mbi/software/
Responsible: no one
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License: BSD
Debian package not available |
| Piano is a library containing roughly 75 algorithms and tools for
multi-dimensional medical image processing, analysis and visualization.
It is used in the field of surgical planning.
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Pixelmed
PixelMed Java DICOM Toolkit
http://www.pixelmed.com/index.html#PixelMedJavaDICOMToolkit
Responsible: no one
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License: Free
Debian package not available |
| This is a stand-alone DICOM toolkit that implements code for reading and
creating DICOM data, DICOM network and file support, a database of DICOM objects,
support for display of directories, images, reports and spectra, and DICOM object
validation.
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Pixelmed-dicom-toolkit
This is a stand-alone DICOM toolkit that implements code for reading
http://www.pixelmed.com/index.html#PixelMedJavaDICOMToolkit
Responsible: no one
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License: BSD
Debian package not available |
and creating DICOM data, DICOM network and file support, a database
of DICOM objects, support for display of directories, images, reports
and spectra, and DICOM object validation.
The toolkit is a completely new implementation, which does not depend
on any other DICOM tools, commercial or free. It does make use of
other freely available pure Java tools for compression and XML and
database support.
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Slicer
visualization, registration, segmentation, and quantification of medical data
http://www.slicer.org/
Responsible: no one
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License: BSD like
Debian package not available |
The 3D Slicer is freely available, open-source software for visualization,
registration, segmentation, and quantification of medical data. The slicer
source seems to be available via CVS only.
The license statement can be seen at
http://www.slicer.org/cgi-bin/License/SlicerLicenseForm.pl
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Sofa
Simulation Open Framework Architecture
http://www.sofa-framework.org/
Responsible: no one
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License: LGPL
Debian package not available |
SOFA (Simulation Open Framework Architecture) is an Open Source framework
primarily targeted at real-time simulation, with an emphasis on medical
simulation. It is mostly intended for the research community to help develop
newer algorithms, but can also be used as an efficient prototyping tool.
Based on an advanced software architecture, it allows to:
* create complex and evolving simulations by combining new algorithms
with algorithms already included in SOFA
* modify most parameters of the simulation - deformable behavior, surface
representation, solver, constraints, collision algorithm, etc. - by
simply editing an XML file
* build complex models from simpler ones using a scene-graph description
* efficiently simulate the dynamics of interacting objects using abstract
equation solvers
* reuse and easily compare a variety of available methods
SOFA version 1.0 beta 1 was released during the Medicine Meets Virtual
Reality 2007 conference in Long Beach, California.
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Visit — wnpp
visualization and graphical analysis tool for viewing scientific data
http://www.llnl.gov/visit/
Responsible: no one
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License: 3-clause BSD license with additional disclaimers
Debian package not available |
VisIt is a free interactive parallel visualization and graphical
analysis tool for viewing scientific data. Users can quickly
generate visualizations from their data, animate them through time,
manipulate them, and save the resulting images for presentations.
VisIt contains a rich set of visualization features so that you can
view your data in a variety of ways. It can be used to visualize
scalar and vector fields defined on two- and three-dimensional (2D
and 3D) structured and unstructured meshes.
VisIt was designed to handle very large data set sizes in the terascale
range and yet can also handle small data sets in the kilobyte range.
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