Portal:FLOSS4Science/Featured/more
At this stage, we need a list of FLOSS for Science. Please add  even just a name and a link ... or links to other sites with lists. If you have time and feel inclined, feel free to redesign this page. Thanks :).
Previously FeaturedEdit
FLOSS  Type of Users  Description  URL  Links 

Scienceoriented distros  Scientists  Complete free operating systems for scientists  various  SL, ... 
GNU Octave  Scientists doing numerical computation  A highlevel language, primarily intended for numerical computations  Octave home  FAQ, Docs,... 
The R Project  Researchers needing statistical software  A free software environment for statistical computing and graphics  Home  FAQs 
UnclassifiedEdit
If you have time, please move these and expand. Thanks :)
 BLAST  (Basic Local Alignment Search Tool) aligns biological sequences locally and rapidly using heuristic techniques to speed the search.
 Hadoop!  platform that lets one easily write and run applications that process vast amounts of data.
 LINPACK  a collection of Fortran subroutines that analyze and solve linear equations and linear leastsquares problems.
 List from OpenWetWare  including molecular biology, biotechnology, etc.
 Nano Hive
 NIH ImageJ  image processing and analysis  biological images.
 openDesktop.org  click on Scientific.
 Scilab  numerical computation.
 TiLP  a linking program for Texas Instruments' graphing calculators.
 Weft QDA  tool to assist in the analysis of textual data such as interview transcripts, written texts and fieldnotes.
 wxMaxima  Computer Algebra System
 Xfig  drawing
 Xmgrace  WYSIWYG 2D plotting tool.
 Scienceoriented distros on DistroWatch.
GenericEdit
ChartingEdit
Package  Overview  Comments  Rating 

JFreeChart  Charting application with a wide range of charts.  Consider integrating with OpenOffice.org (Calc/ Base) and/or Kexi, etc.  8/10 
KChart  Charting application for KDE  Please test this ... also under Gnome.  0 
Open Source Charting & Reporting Tools in Java  A list including JFreeChart and jCharts  JFreeChart seems most comprehensive  check out the samples.  8/10 
Data miningEdit
 Data Mining (book)
Maths and StatsEdit
 MATH  OpenOffice.org's component for mathematical equations.
 OOo Statistics
 JMathLib
 Agros2D  solving partial differential equations.
 PSPP  a program for statistical analysis of sampled data.
 gretl  Gnu Regression, Econometrics and Timeseries Library.
Package  Overview  Comments  Rating 

Octave  A highlevel language, primarily intended for numerical computations. It provides a convenient command line interface for solving linear and nonlinear problems numerically, and for performing other numerical experiments using a language that is mostly compatible with Matlab. It may also be used as a batchoriented language. See also: Octave Integration.  Highly regarded widely!  8/10 
R  A free software environment for statistical computing and graphics.  Highly regarded widely!  8/10 
CALCULIX  ThreeDimensional Structural Finite Element Program  designed to solve field problems.  ...  0/10 
SAGE  Open Source Mathematics Software  Blog post  
RGnumeric  Plugin enabling R functions to be called via R commands and used like buitin GNumeric functions.  ... 
PlottingEdit
 Ctioga
 Approximatrix  (not really science oriented).
 gnuplot  a portable commandline driven graphing utility for various platforms.
See Charting above.
GeneralEdit
MindmappingEdit
Package  Overview  Comments  Rating 

Freemind  ...  ...  8/10 
MindRaider  ...  ... 
ListsEdit
Search for List of mind mapping software on Wikipedia. 
Grid and Cluster ComputingEdit
 Beowulf
 BOINC
 Clustering routines that can be used to analyze gene expression data
 Gluster  a GNU clustering platform
 Grid Engineand wiki.
 The High Availability Linux project
 Kerrighed  SSI clustering package]
 openMosix  openMosix provides singlesystem image (SSI) clustering, which means that the distributed multiple resources present on the network appears to user applications as as single local resource.
 OpenSSI
 OSCAR
 PVM (Parallel Virtual Machine)
Reviews, Surveys, Lists, Communities, etc.Edit
 A survey of open source cluster management systems (Linux.com 2006)
 Grid computing (Wikipedia)
 Enabling Grids for EsciencE (Wikipedia)
Field/disciplinespecificEdit
BiologyEdit
 ....
BioinformaticsEdit
Molecular biologyEdit
Package  Overview  Comments  Rating 

...  ...  ...  0/10 
...  ...  ...  0/10 
ChemistryEdit
 Kalzium  explore the periodic table]
 Gnome Chemistry Utils
 Linux4Chemistry
 SHELX  a set of programs for crystal structure determination from singlecrystal diffraction data.
 Spresso  Stanford Public Release Electrophoretic Separation Solver: simulation of nonlinear electrophoresis (Stanford Microfluidics Laboratory).
 Jmol  an opensource Java viewer for chemical structures in 3D.
AstronomyEdit
GeneologyEdit
Package  Overview  Comments  Rating 

...  ...  ...  0/10 
...  ...  ...  0/10 
GIS and Spatial Analytical ToolsEdit
Suggestion: categorise as Viewer, Intermediate Spatial Analysis Tool, or Advanced Spatial Analysis Tool. See also: w:List of geographic information systems software.
Package  Overview  Comments  Rating 

GRASS  ...  ...  0/10 
MapWindow 

Not quite Spatial Analyst, but getting there  7/10 
QGIS  supports vector, raster, and database formats.  5/10  
Open Source GIS  List  Many useful spatial viewing, analysis and manipulation tools.  8/10 
GISKnoppix  ...  ...  0/10 
MapServer  ...  ...  5/10 
Free GIS  List of FreeGIS software packages  ...  4/10 
Cocoon ArcIms  ...  ...  0/10 
OSSIM  Remote sensing/ image processing/ GIS package  ...  0/10 
SAGA GIS  A free geographic information system (GIS), with a special 'Application Programming Interface' (API) for geographic data processing  The SAGA API supports grid data, vector data, and tables.  ... 
GeOxygene  An open framework which implements OGC/ISO specifications for the development and deployment of geographic (GIS) applications  ...  
Thuban  An interactive geographic data viewer  ...  ... 
TreeSap  Qualitative querying GIS  Rather than specifying a query using numerical measurements ("within 5km"), English phrases are used ("near"), etc. 
Desktop GISsEdit
ComparisonsEdit
LinksEdit
DataEdit
MedicineEdit
ImagingEdit
 (X)MedCon  toolkit for medical image conversion. Supported formats include: Acr/Nema 2.0, Analyze (SPM), DICOM 3.0, InterFile 3.3 and PNG.
 Ginkgo CADx
 EEG / MRI Matlab Toolbox  (requires matlab 6+)
 Slicer  biomedical computing application with builtin visualization and analysis capabilities.
 OpenDICOM
 Aeskulap
 kradview
PhysicsEdit
 Physics Live CD  physical simulations, and software to help develop simulations.
 massXpert  mass spectrometry
Modeling and SimulationEdit
Some of the software listed elsewhere on this page may include modelling and simulation possibilities. For now, we just list any FLOSS with modelling and simulation capabilities which may be used for scientific applications, education and research.
ListsEdit
If you use any software on the following lists for learning/teaching, please unpack details elsewhere on this page and add links to your learning resources etc. elsewhere on this FLOSS4Science portal:
 w:List of computer simulation software
 w:List of system dynamics software
 Simulation software development frameworks
 Simulation application software
 w:List of discrete event simulation software
GeneralEdit
The following may be used in multiple domains:
 Open CASCADE Technology, 3D modeling & numerical simulation
 Spatial Modeling Environment (SME3)  integrated environment for high performance spatial modeling
 Spreadsheets
 OpenOffice.org  Calc
 Gnumeric
Domain SpecificEdit
The following are associated with specific domains of application, though some may be applied in others with a bit of imagination:
 SkyEye  an integrated simulation environment for embedded computer systems
 OpenSimulator  a 3D Application Server for creating virtual environments
 JMCAD  a program for the modelling and simulation of complex dynamic systems
etc.Edit
 Scientific Applications on Linux
 FLOSS list on Wikipedia  includes scientific packages
 Free Science Software on Wikipedia.
 Catalog of Free and Open Source Software for Education  including software for maths and science.
 FSF List
Developer ToolsEdit
Especially where these have a slant towards some aspect of science.
Package  Overview  Comments  Rating 

...  ...  ...  0/10 
...  ...  ...  0/10 