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add link to vistrails

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* !VisTrails  [[http://vistrails.org]]  !VisTrails is an opensource scientific workflow and provenance management system developed at the University of Utah that provides support for data exploration and visualization. 
Numeric and Scientific
PyGSL  http://pygsl.sourceforge.net/  This project provides a python interface for the GNU scientific library (gsl).
NumPy  http://numpy.scipy.org/  Numerical Python adds a fast, compact, multidimensional array facility to Python. NumPy is the successor to both Numeric and Numarray.
Deprecated: Numeric  http://www.numpy.org/  Numerical Python adds a fast, compact, multidimensional array language facility to Python. (Note: superseded by NumPy)
Deprecated: NumArray  http://stsdas.stsci.edu/numarray/index.html  Numarray is a reimplementation of Numeric which adds the ability to efficiently manipulate large numeric arrays in ways similar to Matlab and IDL. (Note: superseded by NumPy)
SciPy  http://www.scipy.org/ SciPy is an open source library of scientific tools for Python. SciPy supplements the popular NumPy module, gathering a variety of high level science and engineering modules together as a single package. SciPy includes modules for linear algebra, optimization, integration, special functions, signal and image processing, statistics, genetic algorithms, ODE solvers, and others.
SymPy  http://code.google.com/p/sympy/ SymPy is a symbolic manipulation package, written in pure Python. Its aim is to become a full featured CAS in Python, while keeping the code as simple as possible in order to be comprehensible and easily extensible.
FuncDesigner  http://openopt.org/FuncDesigner Pythonwritten CAS to rapidly build functions and get their derivatives via automatic differentiation. Also, you can solve systems of linear/nonlinear equations and numerical optimization problems coded in FuncDesigner by OpenOpt.
OpenOpt  http://openopt.org  a framework for numerical optimization and systems of linear/nonlinear equations. Connects to dozens of solvers (some are C or Fortranwritten). Can optimize FuncDesigner models with automatic differentiation. Provides graphic output of convergence and some more numerical optimization "MUST HAVE" features.
jHepWork  http://jwork.org/jhepwork  a multiplatform dataanalysis framework written in Java. The main programming language is Jython, a clone of Python written in Java. Contains Java libraries for numerical calculations and visualisation of scientific graphs. Contains an interactive Python prompt.
ScientificPython  http://dirac.cnrsorleans.fr/ScientificPython/  ScientificPython is a collection of Python modules that are useful for scientific computing. In this collection you will find modules that cover basic geometry (vectors, tensors, transformations, vector and tensor fields), quaternions, automatic derivatives, (linear) interpolation, polynomials, elementary statistics, nonlinear leastsquares fits, unit calculations, Fortrancompatible text formatting, 3D visualization via VRML, and two Tk widgets for simple line plots and 3D wireframe models. There are also interfaces to the netCDF library (portable structured binary files), to MPI (Message Passing Interface, messagebased parallel programming), and to BSPlib (Bulk Synchronous Parallel programming).
PyACTS http://www.pyacts.org  PyACTS is a collection of Python Modules that are very useful to Parallel Computing in a High Performance Computing environment. This packages incorporates several modules like PyBLACS (allows communication data for Linear Algebra), PyPBLAS (distributed Matrix Operations) and PyScaLAPACK (solve linear systems and get the eigenvalue problems). These libraries are part of PyACTS project that provide interfaces to the ACTS Collection. Also is provided a parallel interpreter for using this package that implements messagebased parallel programming using MPI.
PyDSTool  http://pydstool.sourceforge.net  PyDSTool is an integrated simulation, modeling and analysis package for dynamical systems (including ODEs, DAEs, maps, and hybrid systems) and scientific data. Building on SciPy classes, the package also supports symbolic expression processing, bifurcation analysis, and enhanced arrays for "indexfree" and highly contextualized scientific data manipulation. Model building tools use symbolic expression and hierarchical specification classes to ease the development and analysis of complex models. This includes automated compilation of symbolic representations of models into fast numerical code using enhanced legacy Fortran and C integrators for both stiff and nonstiff systems.
escript  https://launchpad.net/escriptfinley  escript is a Python module to define and solve coupled, nonlinear, timedependent partial differential equations (PDEs). The user has to implement highlevel time integration schemes and iteration schemes to reduce the problem to the solution of steady, linear systems of PDEs which are solved by a suitable PDE solver library. The current version uses the FEM solver library finley but the design is open and other libraries can be used. escript is parallelized for OpenMP and MPI. It is compatible with NumPy and VTK for visualization.
PyIMSL  http://www.vni.com/products/imsl/pyimsl/overview.php  PyIMSL is a collection of Python wrappers to the mathematical and statistical algorithms in the IMSL C Numerical Library. PyIMSL offers a quality Python interface to the largest collection of portable statistical and analytical algorithms available for Python. Developers can use Python, PyIMSL and the IMSL C Library for rapid prototyping. They can then directly deploy the Python application into production or if they choose to rewrite the application in C/C++ use the same math and stats algorithms in both development environments. PyIMSL Studio is a packaged, supported and documented development environment designed for deploying mathematics and statistics prototype models into production applications. PyIMSL Studio includes the Python language distribution and contains both open source and proprietary components that create a fully supported and documented platform for analytic prototyping and production development. PyIMSL Studio is available for download at no charge for noncommercial use or for commercial evaluation.
PyGTS  http://pygts.sourceforge.net/  PyGTS is a python package used to construct, manipulate, and perform computations on 3D triangulated surfaces. It is a handcrafted and pythonic binding for the GNU Triangulated Surface (GTS) Library (http://gts.sourceforge.net/).
Multi precision math
MultiprecisionSoftwareDirectory (http://crd.lbl.gov/~dhbailey/mpdist/index.html)  Python wrapping unknown
MAPM (http://www.tc.umn.edu/~ringx004/mapmmain.html)  Python wrapping unknown
GmPy (http://gmpy.sourceforge.net/)  GNU Multiple Precision library wrapping
mpmath  http://code.google.com/p/mpmath/  mpmath is a pure Python library for arbitraryprecision floatingpoint arithmetic, with support for complex numbers. Implements all the transcendental functions from Python's math and cmath modules and many others.
clnum  http://calcrpnpy.sourceforge.net/clnum.html  Class Library For Numbers wrapping
The Grid
Grid is a type of parallel and distributed system that enables the sharing, selection, and aggregation of resources distributed across "multiple" administrative domains based on their (resources) availability, capability, performance, cost, and users' qualityofservice requirements.
PyGlobus  Globus toolkit bindings for python
PEG  Python Extensions for the Grid
Ganga  Grid job management interface.
DIANE  Python userlevel middleware layer for Grids.
Geographic Information System (GIS), Mapping, Image Processing and Analysis
Thuban is a Python Interactive Geographic Data Viewer with the following features:
 Vector Data Support: Shapefile, PostGIS Layer, Raster Data Support: GeoTIFF Layer, Comfortable Map Navigation, Object Identification and Annotation, Legend Editor and Classification, Table Queries and Joins, Projection Support, Printing and Vector Export, API for AddOns (Extensions), MultiLanguage Support: English, French, German, Hungarian, Italian, Russian and Spanish, User Manual (English) Multiplatform (GNU/Linux, Windows, ...). (Noli Sicad)
Python Cartographic Library, OWSLib, GeoJSON, and Rtree  packages for GIS programming and a cartographic application framework.
Image analysis and visualization
VTK  http://vtk.org/  is an open source, freely available software system for 3D computer graphics, image processing, and visualization used by thousands of researchers and developers around the world. It has a very good python interface.
WrapITK  http://code.google.com/p/wrapitk/  interface ITK http://itk.org and several languages, with a particular focus on python. ITK module used with python interpreter is particulary useful for quick and easy prototyping of image analysis procedures. Some glue classes allow to efficiently pass data to others modules like NumPy or VTK.
PIL  http://www.pythonware.com/products/pil  Python Imaging Library provides basic image handling and processing for various image types including jpg, gif, tiff, and bmp. Reads and writes graphics files. Allows pixelbypixel data access and has functions for cropping and transposing an image. Also has various filters builtin.
matplotlib  http://matplotlib.sourceforge.net/  matplotlib is a python 2D plotting library which produces publication quality figures in a variety of hardcopy formats and interactive environments across platforms. matplotlib can be used in python scripts, the python and ipython shell (ala matlab or mathematica), web application servers, and six graphical user interface toolkits.
Mayavi  https://svn.enthought.com/enthought/wiki/MayaVi  application and library for interactive visualization in 3D of scientific data. High level and targeted toward the end user/application developer.
VisTrails  http://vistrails.org  VisTrails is an opensource scientific workflow and provenance management system developed at the University of Utah that provides support for data exploration and visualization.
Life sciences
Biopython  http://biopython.org/wiki/Main_Page  a set of freely available tools for biological computation and bioinformatics. It includes pycluster, a binding for the Cluster software.
PyCogent  http://pycogent.sourceforge.net/  COmparative GENomic Toolkit. Another popular and extensive library for genomic biology.
PyChem  http://pychem.sf.net/  a crossplatform open source package for multivariate analysis, that includes a graphical user interface.
bxpython  http://bitbucket.org/james_taylor/bxpython/  Library and associated set of scripts to allow for rapid implementation of genome scaleanalyses. Also a fundamental part of the ongoing Galaxy and ESPERR projects.
p4  http://bmnh.org/~pf/p4.html  Python package for phylogenetics, useful for programmatic manipulation of phylogenetic data and trees, including maximum likelihood and Bayesian inference.
Modeller  http://salilab.org/modeller  used for homology or comparative modeling of protein threedimensional structures. Control scripts are Python based.
PyMol  http://www.pymol.org/  3D molecular viewer, suitable (and widely used) for publications and presentations. Fully scriptable in Python.
Miscellaneous
PyLink is an open source Python module for interfacing with the EyeLink eye tracking hardware. Find it at PyLink
SimPy is an opensource discreteevent simulation package in Python. Read more at its Homepage
GarlicSim is a Pythonic framework for simulations. It can be used with simulations in any scientific field. Official website
Links
NumericAndScientific/Libraries  useful libraries
NumericAndScientific/Formats  modules for reading and writing various file formats
CERN SEAL Python Services  Automatic Python/C/C++ binding