Debian Med Physics packages

Octave jest (w większości kompatybilnym z Matlab (R)) wysokopoziomowym językiem, początkowo stworzonym do obliczeń numerycznych. Dostarcza wygodny interfejs wiersza poleceń do rozwiązywania liniowych oraz nieliniowych zadań metodami numerycznymi.

Octave używa najlepszych i najbardziej respektowanych bibliotek numerycznych, takich jak balgen, dassl, eispack, fftpack, lapack, linpack, minpack, odepack, renlib, slatec-fn oraz villad. Octave może być dynamicznie rozszerzany za pomocą dostarczonych przez użytkownika plików C++.

CERNLIB to zestaw narzędzi do analizy danych oraz biblioteka stworzona na potrzeby fizyki doświadczalnej, zawiera jednak również aplikacje pomocne w innych dziedzinach, takich jak nauki biologiczne.

PAW jest interaktywnym programem zawierającym narzędzia do graficznej prezentacji oraz do analizy statystycznej i matematycznej. Jest przeznaczony do pracy na obiektach bliskich fizykom takich jak histogramy, pliki zdarzeń (Ntuples), wektory itp.

W celu poprawnego funkcjonowania, na architekturach 64-bitowych, program jest łączony statycznie z biblioteką CERN, gdyż nie był projektowany na taką architekturę.

CERNLIB is a suite of data analysis tools and libraries created for use in physics experiments, but also with applications to other fields such as the biological sciences.

This package includes Paw++, an interactive program for use in analysis and graphical presentation. Paw++ is the same program as PAW (in the "paw" package), but with a more user-friendly Motif-based GUI, compiled against Lesstif in Debian.

The program is linked statically against the CERN libraries on 64-bit architectures in order to function properly, as its design is not very 64-bit clean.

R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files.

The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme.

The core of R is an interpreted computer language which allows branching and looping as well0;115;0c as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations.

Additionally, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'.

This package is a metapackage which eases the transition from the pre-1.5.0 package setup with its larger r-base package. Once installed, it can be safely removed and apt-get will automatically upgrade its components during future upgrades. Providing this packages gives a way to users to then only install r-base-core if they so desire.

R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files.

The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme.

The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations.

Additionally, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'.

This package provides the core GNU R system from which only the optional documentation packages r-base-html, r-doc-html, r-doc-pdf and r-doc-info have been split off to somewhat reduce the size of this package.

CERNLIB is a suite of data analysis tools and libraries created for use in physics experiments, but also with applications to other fields such as the biological sciences.

This package includes example scripts for use by PAW or Paw++, and test scripts to make sure that the PAW or Paw++ programs behave correctly. You may run the examples and tests with the included paw-demos program.

GATE incorporates the Geant4 libraries in a modular, versatile, and scripted simulation toolkit which is adapted to the field of nuclear medicine both in PET (Positron Emission Tomography) and SPECT (Single Photon Emission Computer Tomography). It allows the accurate description of time-dependent phenomena such as source or detector movement and source decay kinetics. The ability to synchronize all time-dependent components allows a coherent description of the acquisition process. It makes it possible to perform realistic simulations of data acquisitions in time.

BioSig is an open source software library for biomedical signal processing, featuring for example the analysis of biosignals such as the electroencephalogram (EEG), electrocorticogram (ECoG), electrocardiogram (ECG), electrooculogram (EOG), electromyogram (EMG), respiration, and so on. Major application areas are: Neuroinformatics, brain-computer interfaces, neurophysiology, psychology, cardiovascular systems and sleep research. The aim of the BioSig project is to foster research in biomedical signal processing by providing open source software tools for many different applications. Generally, many concerns have to be addressed in this scientific field. BioSig handles this by providing solutions for data acquisition, artifact processing, quality control, feature extraction, classification, modeling, data visualization, and so on.

BioSig consists of some (more or less) coherent parts, for more details take a look at the project page:

• BioSig for Octave and Matlab (biosig4octmat): A toolbox for Octave and Matlab with powerful data import and export filters, feature extraction algorithms, classification methods, and a powerful viewing and scoring software.
• BioSig for C/C++ (biosig4c++) containing: reading and writing routines for different biosignal data formats.
• libbiosig - a library for reading and writing of a number of data formats. libbiosig is used by save2gdf, mexSLOAD and SigViewer
• save2gdf - a converter between different data formats, and can be used to show the header information
• mexSLOAD is a MEX-interface for loading biosignal data into Octave (its much faster than the pure M-tools from biosig4octmat). It requires Octave-headers and libbiosig
• SigViewer (sigviewer): A stand-alone viewing and scoring software for biosignals (especially for EEG signals) based on C++ and the platform-independent GUI toolkit Qt 4.
• rtsBCI (rtsbci): A real-time BCI system implemented in Matlab and Simulink.
• BioProFeed (bioprofeed)
• BCIx (bcix)