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-<DIV lang=en id=content dir=ltr><SPAN class=anchor id=top></SPAN><SPAN 
class=anchor id=line-1></SPAN>
<P class=line867>
<H1 id=NumericandScientific>Numeric and Scientific</H1><SPAN class=anchor 
id=line-2></SPAN><SPAN class=anchor id=line-3></SPAN>
<UL>
  <LI>
  <P class=line891><A href="http://wiki.python.org/moin/PyGSL">PyGSL</A> - <A 
  class=http 
  href="http://pygsl.sourceforge.net/">http://pygsl.sourceforge.net/</A> -- This 
  project provides a python interface for the GNU scientific library (gsl). 
  <SPAN class=anchor id=line-4></SPAN><SPAN class=anchor id=line-5></SPAN></P>
  <LI class=gap>
  <P class=line891><A href="http://wiki.python.org/moin/NumPy">NumPy</A> - <A 
  class=http href="http://numpy.scipy.org/">http://numpy.scipy.org/</A> -- 
  Numerical Python adds a fast, compact, multidimensional array facility to 
  Python. <A href="http://wiki.python.org/moin/NumPy">NumPy</A> is the successor 
  to both Numeric and Numarray. <SPAN class=anchor id=line-6></SPAN><SPAN 
  class=anchor id=line-7></SPAN>
  <UL>
    <LI>
    <P class=line891><STRONG>Deprecated</STRONG>: <A 
    href="http://wiki.python.org/moin/Numeric">Numeric</A> - <A class=http 
    href="http://www.numpy.org/">http://www.numpy.org/</A> -- Numerical Python 
    adds a fast, compact, multidimensional array language facility to Python. 
    (Note: superseded by <A href="http://wiki.python.org/moin/NumPy">NumPy</A>) 
    <SPAN class=anchor id=line-8></SPAN><SPAN class=anchor id=line-9></SPAN></P>
    <LI class=gap>
    <P class=line891><STRONG>Deprecated</STRONG>: <A 
    href="http://wiki.python.org/moin/NumArray">NumArray</A> - <A class=http 
    href="http://stsdas.stsci.edu/numarray/index.html">http://stsdas.stsci.edu/numarray/index.html</A> 
    -- 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 (Note: superseded by <A 
    href="http://wiki.python.org/moin/NumPy">NumPy</A>) <SPAN class=anchor 
    id=line-10></SPAN><SPAN class=anchor id=line-11></SPAN></P></LI></UL>
  <LI class=gap>
  <P class=line891><A href="http://wiki.python.org/moin/SciPy">SciPy</A> - <A 
  class=http href="http://www.scipy.org/">http://www.scipy.org/</A> <A 
  href="http://wiki.python.org/moin/SciPy">SciPy</A> is an open source library 
  of scientific tools for Python. <A 
  href="http://wiki.python.org/moin/SciPy">SciPy</A> supplements the popular <A 
  href="http://wiki.python.org/moin/NumPy">NumPy</A> module, gathering a variety 
  of high level science and engineering modules together as a single package. <A 
  href="http://wiki.python.org/moin/SciPy">SciPy</A> includes modules for linear 
  algebra, optimization, integration, special functions, signal and image 
  processing, statistics, genetic algorithms, ODE solvers, and others. <SPAN 
  class=anchor id=line-12></SPAN><SPAN class=anchor id=line-13></SPAN></P>
  <LI class=gap>
  <P class=line891>SymPy - <A class=http 
  href="http://code.google.com/p/sympy/">http://code.google.com/p/sympy/</A> 
  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. <SPAN 
  class=anchor id=line-14></SPAN><SPAN class=anchor id=line-15></SPAN></P>
  <LI class=gap>
  <P class=line891>FuncDesigner - <A class=http 
  href="http://openopt.org/FuncDesigner">http://openopt.org/FuncDesigner</A> 
  FuncDesigner is Python module to rapidly build functions and get their 
  derivatives via automatic differentiation. Also you can perform integration, 
  interpolation, solve systems of linear/non-linear/ODE equations and numerical 
  optimization problems coded in FuncDesigner by OpenOpt. <SPAN class=anchor 
  id=line-16></SPAN><SPAN class=anchor id=line-17></SPAN></P>
  <LI class=gap>
  <P class=line891>OpenOpt - <A class=http 
  href="http://openopt.org/">http://openopt.org/</A> - a framework for numerical 
  optimization and systems of linear/non-linear equations. Connects to dozens of 
  solvers (some are C- or Fortran-written). Can optimize FuncDesigner models 
  with automatic differentiation. Provides graphic output of convergence and 
  some more numerical optimization "MUST HAVE" features. <SPAN class=anchor 
  id=line-18></SPAN><SPAN class=anchor id=line-19></SPAN></P>
  <LI class=gap>
  <P class=line862>!NLopt - <A class=http 
  href="http://ab-initio.mit.edu/nlopt">http://ab-initio.mit.edu/nlopt</A> - 
  another library for nonlinear optimization, including many local/global 
  optimization algorithms written in C, with a Python interface (as well as 
  interfaces for several other languages). <SPAN class=anchor 
  id=line-20></SPAN><SPAN class=anchor id=line-21></SPAN></P>
  <LI class=gap>
  <P class=line891><A href="http://wiki.python.org/moin/jHepWork">jHepWork</A> - 
  <A class=http href="http://jwork.org/jhepwork">http://jwork.org/jhepwork</A> - 
  a multiplatform data-analysis 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. <SPAN class=anchor id=line-22></SPAN><SPAN 
  class=anchor id=line-23></SPAN></P>
  <LI class=gap>
  <P class=line891><A 
  href="http://wiki.python.org/moin/ScientificPython">ScientificPython</A> - <A 
  class=http 
  href="http://dirac.cnrs-orleans.fr/ScientificPython/">http://dirac.cnrs-orleans.fr/ScientificPython/</A> 
  -- <A href="http://wiki.python.org/moin/ScientificPython">ScientificPython</A> 
  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 least-squares fits, unit calculations, Fortran-compatible 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, 
  message-based parallel programming), and to BSPlib (Bulk Synchronous Parallel 
  programming). <SPAN class=anchor id=line-24></SPAN><SPAN class=anchor 
  id=line-25></SPAN></P>
  <LI class=gap>
  <P class=line891><A href="http://wiki.python.org/moin/PyACTS">PyACTS</A>- <A 
  class=http 
  href="http://wiki.python.org/moin/PyACTS">http://wiki.python.org/moin/PyACTS</A> 
  -- 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 
  message-based parallel programming using MPI. <SPAN class=anchor 
  id=line-26></SPAN><SPAN class=anchor id=line-27></SPAN></P>
  <LI class=gap>
  <P class=line891><A href="http://wiki.python.org/moin/PyDSTool">PyDSTool</A> - 
  <A class=http 
  href="http://pydstool.sourceforge.net/">http://pydstool.sourceforge.net/</A> 
  -- PyDSTool is an integrated simulation, modeling and analysis package for 
  dynamical systems (including ODEs, DAEs, maps, and hybrid systems) and 
  scientific data. Building on <A 
  href="http://wiki.python.org/moin/SciPy">SciPy</A> classes, the package also 
  supports symbolic expression processing, bifurcation analysis, and enhanced 
  arrays for "index-free" 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 non-stiff systems. <SPAN class=anchor id=line-28></SPAN><SPAN 
  class=anchor id=line-29></SPAN></P>
  <LI class=gap>
  <P class=line891><A class=https 
  href="https://launchpad.net/escript-finley">escript</A> - <A class=https 
  href="https://launchpad.net/escript-finley">https://launchpad.net/escript-finley</A> 
  -- escript is a Python module to define and solve coupled, non-linear, 
  time-dependent partial differential equations (PDEs). The user has to 
  implement high-level 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 <A 
  href="http://wiki.python.org/moin/NumPy">NumPy</A> and VTK for visualization. 
  <SPAN class=anchor id=line-30></SPAN><SPAN class=anchor id=line-31></SPAN></P>
  <LI class=gap>
  <P class=line891><A class=http 
  href="http://www.vni.com/campaigns/pyimslstudioeval">PyIMSL</A> - <A 
  class=http 
  href="http://www.vni.com/products/imsl/pyimsl/overview.php">http://www.vni.com/products/imsl/pyimsl/overview.php</A> 
  -- 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. <A class=http 
  href="http://www.vni.com/campaigns/pyimslstudioeval">PyIMSL Studio</A> 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 
  non-commercial use or for commercial evaluation. <SPAN class=anchor 
  id=line-32></SPAN><SPAN class=anchor id=line-33></SPAN></P>
  <LI class=gap>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/PyGTS">PyGTS</A> - <A class=http 
  href="http://pygts.sourceforge.net/">http://pygts.sourceforge.net/</A> -- 
  PyGTS is a python package used to construct, manipulate, and perform 
  computations on 3D triangulated surfaces. It is a hand-crafted and pythonic 
  binding for the GNU Triangulated Surface (GTS) Library (<A class=http 
  href="http://gts.sourceforge.net/">http://gts.sourceforge.net/</A>). <SPAN 
  class=anchor id=line-34></SPAN><SPAN class=anchor id=line-35></SPAN></P>
  <LI class=gap>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/scikit-learn">scikit-learn</A> - <A 
  class=http 
  href="http://scikit-learn.sourceforge.net/">http://scikit-learn.sourceforge.net/</A> 
  -- machine learning and data mining in Python, using <A 
  href="http://wiki.python.org/moin/NumPy">NumPy</A> and <A 
  href="http://wiki.python.org/moin/SciPy">SciPy</A> <SPAN class=anchor 
  id=line-36></SPAN><SPAN class=anchor id=line-37></SPAN></P>
  <LI class=gap>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/mlpy">mlpy</A> - <A class=https 
  href="https://mlpy.fbk.eu/">https://mlpy.fbk.eu/</A> -- Machine Learning 
  PYthon -- high-performance Python module for Predictive Modeling. <SPAN 
  class=anchor id=line-38></SPAN><SPAN class=anchor 
id=line-39></SPAN></P></LI></UL>
<P class=line867>
<H1 id=Multiprecisionmath>Multi precision math</H1><SPAN class=anchor 
id=line-40></SPAN><SPAN class=anchor id=line-41></SPAN>
<UL>
  <LI>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/MultiprecisionSoftwareDirectory">MultiprecisionSoftwareDirectory</A> 
  (<A class=http 
  href="http://crd.lbl.gov/~dhbailey/mpdist/index.html">http://crd.lbl.gov/~dhbailey/mpdist/index.html</A>) 
  - Python wrapping unknown <SPAN class=anchor id=line-42></SPAN></P>
  <LI>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/MAPM">MAPM</A> (<A class=http 
  href="http://www.tc.umn.edu/~ringx004/mapm-main.html">http://www.tc.umn.edu/~ringx004/mapm-main.html</A>) 
  - Python wrapping unknown <SPAN class=anchor id=line-43></SPAN></P>
  <LI>
  <P class=line891><A href="http://wiki.python.org/moin/GmPy">GmPy</A> (<A 
  class=http 
  href="http://gmpy.sourceforge.net/">http://gmpy.sourceforge.net/</A>) - GNU 
  Multiple Precision library wrapping <SPAN class=anchor id=line-44></SPAN></P>
  <LI>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/mpmath">mpmath</A> - <A class=http 
  href="http://code.google.com/p/mpmath/">http://code.google.com/p/mpmath/</A> - 
  mpmath is a pure Python library for arbitrary-precision floating-point 
  arithmetic, with support for complex numbers. Implements all the 
  transcendental functions from Python's math and cmath modules and many others. 
  <SPAN class=anchor id=line-45></SPAN></P>
  <LI>
  <P class=line862>clnum - <A class=http 
  href="http://calcrpnpy.sourceforge.net/clnum.html">http://calcrpnpy.sourceforge.net/clnum.html</A> 
  - Class Library For Numbers wrapping <SPAN class=anchor 
  id=line-46></SPAN><SPAN class=anchor id=line-47></SPAN></P></LI></UL>
<P class=line867>
<H1 id=TheGrid>The Grid</H1><SPAN class=anchor id=line-48></SPAN><SPAN 
class=anchor id=line-49></SPAN>
<P class=line874>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' quality-of-service requirements. <SPAN 
class=anchor id=line-50></SPAN><SPAN class=anchor id=line-51></SPAN>
<UL>
  <LI>
  <P class=line891><A class=http 
  href="http://www-itg.lbl.gov/gtg/projects/pyGlobus/index.html">PyGlobus</A> - 
  Globus toolkit bindings for python <SPAN class=anchor id=line-52></SPAN></P>
  <LI>
  <P class=line891><A class=http href="http://gcl.ucsd.edu/peg/">PEG</A> - 
  Python Extensions for the Grid <SPAN class=anchor id=line-53></SPAN></P>
  <LI>
  <P class=line891><A class=http href="http://cern.ch/ganga">Ganga</A> - Grid 
  job management interface. <SPAN class=anchor id=line-54></SPAN></P>
  <LI>
  <P class=line891><A class=http href="http://cern.ch/DIANE">DIANE</A> - Python 
  user-level middleware layer for Grids. <SPAN class=anchor 
  id=line-55></SPAN><SPAN class=anchor id=line-56></SPAN></P></LI></UL>
<P class=line867>
<H1 
id=GeographicInformationSystem.28GIS.29.2CMapping.2CImageProcessingandAnalysis>Geographic 
Information System (GIS), Mapping, Image Processing and Analysis</H1><SPAN 
class=anchor id=line-57></SPAN><SPAN class=anchor id=line-58></SPAN>
<UL>
  <LI>
  <P class=line891><A class=http href="http://thuban.intevation.org/">Thuban</A> 
  is a Python Interactive Geographic Data Viewer with the following features: 
  <SPAN class=anchor id=line-59></SPAN>
  <UL>
    <LI style="LIST-STYLE-TYPE: none">Vector Data Support: Shapefile, PostGIS 
    Layer, <SPAN class=anchor id=line-60></SPAN>Raster Data Support: GeoTIFF 
    Layer, <SPAN class=anchor id=line-61></SPAN>Comfortable Map Navigation, 
    <SPAN class=anchor id=line-62></SPAN>Object Identification and Annotation, 
    <SPAN class=anchor id=line-63></SPAN>Legend Editor and Classification, <SPAN 
    class=anchor id=line-64></SPAN>Table Queries and Joins, <SPAN class=anchor 
    id=line-65></SPAN>Projection Support, <SPAN class=anchor 
    id=line-66></SPAN>Printing and Vector Export, <SPAN class=anchor 
    id=line-67></SPAN>API for Add-Ons (Extensions), <SPAN class=anchor 
    id=line-68></SPAN>Multi-Language Support: English, French, German, 
    Hungarian, Italian, Russian and Spanish, <SPAN class=anchor 
    id=line-69></SPAN>User Manual (English) <SPAN class=anchor 
    id=line-70></SPAN>Multi-platform (GNU/Linux, Windows, ...). (Noli Sicad) 
    <SPAN class=anchor id=line-71></SPAN><SPAN class=anchor 
    id=line-72></SPAN></LI></UL>
  <LI class=gap>
  <P class=line891><A class=http 
  href="http://trac.gispython.org/projects/PCL">Python Cartographic Library, 
  OWSLib, GeoJSON, and Rtree</A> - packages for GIS programming and a 
  cartographic application framework. <SPAN class=anchor id=line-73></SPAN><SPAN 
  class=anchor id=line-74></SPAN></P>
  <LI class=gap>
  <P class=line891><A class=http href="http://pysal.org/">PySAL Python Spatial 
  Analysis LIbrary</A> - an open source cross-platform library of spatial 
  analysis functions written in Python. It is intended to support the 
  development of high level applications for spatial analysis. <SPAN 
  class=anchor id=line-75></SPAN><SPAN class=anchor 
id=line-76></SPAN></P></LI></UL>
<P class=line867>
<H1 id=Imageanalysisandvisualization>Image analysis and visualization</H1><SPAN 
class=anchor id=line-77></SPAN><SPAN class=anchor id=line-78></SPAN>
<UL>
  <LI>
  <P class=line862>VTK - <A class=http 
  href="http://vtk.org/">http://vtk.org/</A> - 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. <SPAN class=anchor 
  id=line-79></SPAN><SPAN class=anchor id=line-80></SPAN></P>
  <LI class=gap>
  <P class=line862>WrapITK - <A class=http 
  href="http://code.google.com/p/wrapitk/">http://code.google.com/p/wrapitk/</A> 
  - interface ITK <A class=http href="http://itk.org/">http://itk.org/</A> 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 <A href="http://wiki.python.org/moin/NumPy">NumPy</A> or 
  VTK. <SPAN class=anchor id=line-81></SPAN><SPAN class=anchor 
  id=line-82></SPAN></P>
  <LI class=gap>
  <P class=line862>PIL - <A class=http 
  href="http://www.pythonware.com/products/pil">http://www.pythonware.com/products/pil</A> 
  - 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 pixel-by-pixel data access and has functions for 
  cropping and transposing an image. Also has various filters built-in. <SPAN 
  class=anchor id=line-83></SPAN><SPAN class=anchor id=line-84></SPAN></P>
  <LI class=gap>
  <P class=line862>matplotlib - <A class=http 
  href="http://matplotlib.sourceforge.net/">http://matplotlib.sourceforge.net/</A> 
  - 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. <SPAN class=anchor id=line-85></SPAN><SPAN 
  class=anchor id=line-86></SPAN></P>
  <LI class=gap>
  <P class=line862>Mayavi - <A class=http 
  href="http://code.enthought.com/projects/mayavi/">http://code.enthought.com/projects/mayavi/</A> 
  - application and library for interactive visualization in 3D of scientific 
  data. High level and targeted toward the end user/application developer. <SPAN 
  class=anchor id=line-87></SPAN><SPAN class=anchor id=line-88></SPAN></P>
  <LI class=gap>
  <P class=line891>VisTrails - <A class=http 
  href="http://vistrails.org/">http://vistrails.org/</A> - VisTrails is an 
  open-source scientific workflow and provenance management system developed at 
  the University of Utah that provides support for data exploration and 
  visualization. <SPAN class=anchor id=line-89></SPAN><SPAN class=anchor 
  id=line-90></SPAN></P></LI></UL>
<P class=line867>
<H1 id=Lifesciences>Life sciences</H1><SPAN class=anchor id=line-91></SPAN><SPAN 
class=anchor id=line-92></SPAN>
<UL>
  <LI>
  <P class=line862>Biopython - <A class=http 
  href="http://biopython.org/wiki/Main_Page">http://biopython.org/wiki/Main_Page</A> 
  -- a set of freely available tools for biological computation and 
  bioinformatics. It includes <A class=http 
  href="http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster/software.htm#pycluster">pycluster</A>, 
  a binding for the <A class=http 
  href="http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster/">Cluster</A> 
  software. <SPAN class=anchor id=line-93></SPAN><SPAN class=anchor 
  id=line-94></SPAN></P>
  <LI class=gap>
  <P class=line891>PyCogent - <A class=http 
  href="http://pycogent.sourceforge.net/">http://pycogent.sourceforge.net/</A> 
  -- COmparative GENomic Toolkit. Another popular and extensive library for 
  genomic biology. <SPAN class=anchor id=line-95></SPAN><SPAN class=anchor 
  id=line-96></SPAN></P>
  <LI class=gap>
  <P class=line891><A href="http://wiki.python.org/moin/PyChem">PyChem</A> - <A 
  class=http href="http://pychem.sf.net/">http://pychem.sf.net/</A> -- a 
  cross-platform open source package for multivariate analysis, that includes a 
  graphical user interface. <SPAN class=anchor id=line-97></SPAN><SPAN 
  class=anchor id=line-98></SPAN></P>
  <LI class=gap>
  <P class=line862>bx-python - <A class=http 
  href="http://bitbucket.org/james_taylor/bx-python/">http://bitbucket.org/james_taylor/bx-python/</A> 
  -- Library and associated set of scripts to allow for rapid implementation of 
  genome scale-analyses. Also a fundamental part of the ongoing <A class=http 
  href="http://g2.bx.psu.edu/">Galaxy</A> and <A class=http 
  href="http://www.bx.psu.edu/projects/esperr">ESPERR</A> projects. <SPAN 
  class=anchor id=line-99></SPAN><SPAN class=anchor id=line-100></SPAN></P>
  <LI class=gap>
  <P class=line862>p4 - <A class=http 
  href="http://bmnh.org/~pf/p4.html">http://bmnh.org/~pf/p4.html</A> -- Python 
  package for phylogenetics, useful for programmatic manipulation of 
  phylogenetic data and trees, including maximum likelihood and Bayesian 
  inference. <SPAN class=anchor id=line-101></SPAN><SPAN class=anchor 
  id=line-102></SPAN></P>
  <LI class=gap>
  <P class=line862>Modeller - <A class=http 
  href="http://salilab.org/modeller">http://salilab.org/modeller</A> -- used for 
  homology or comparative modeling of protein three-dimensional structures. 
  Control scripts are Python based. <SPAN class=anchor id=line-103></SPAN><SPAN 
  class=anchor id=line-104></SPAN></P>
  <LI class=gap>
  <P class=line891>PyMol - <A class=http 
  href="http://www.pymol.org/">http://www.pymol.org/</A> -- 3D molecular viewer, 
  suitable (and widely used) for publications and presentations. Fully 
  scriptable in Python. <SPAN class=anchor id=line-105></SPAN><SPAN class=anchor 
  id=line-106></SPAN></P></LI></UL>
<P class=line867>
<H1 id=Miscellaneous>Miscellaneous</H1><SPAN class=anchor 
id=line-107></SPAN><SPAN class=anchor id=line-108></SPAN>
<UL>
  <LI>
  <P class=line891><A class=nonexistent 
  href="http://wiki.python.org/moin/PyLink">PyLink</A> is an open source Python 
  module for interfacing with the <A class=nonexistent 
  href="http://wiki.python.org/moin/EyeLink">EyeLink</A> eye tracking hardware. 
  Find it at <A class=http 
  href="http://www.eyelinkinfo.com/mount_software.php">PyLink</A> <SPAN 
  class=anchor id=line-109></SPAN></P>
  <LI>
  <P class=line891><A href="http://wiki.python.org/moin/SimPy">SimPy</A> is an 
  open-source discrete-event simulation package in Python. Read more at its <A 
  class=http href="http://simpy.sourceforge.net/index.html">Homepage</A> <SPAN 
  class=anchor id=line-110></SPAN></P>
  <LI>
  <P class=line891><A href="http://wiki.python.org/moin/GarlicSim">GarlicSim</A> 
  is a Pythonic framework for simulations. It can be used with simulations in 
  any scientific field. <A class=http href="http://garlicsim.org/">Official 
  website</A> <SPAN class=anchor id=line-111></SPAN></P>
  <LI>
  <P class=line862>graph-tool - <A class=http 
  href="http://graph-tool.forked.de/">http://graph-tool.forked.de/</A> -- A 
  python module for efficient analysis of graphs, with algorithms implemented in 
  C++ with the Boost Graph Library. <SPAN class=anchor 
  id=line-112></SPAN></P></LI></UL>
<P class=line867>
<H1 id=Links>Links</H1><SPAN class=anchor id=line-113></SPAN><SPAN class=anchor 
id=line-114></SPAN>
<UL>
  <LI>
  <P class=line891><A 
  href="http://wiki.python.org/moin/NumericAndScientific/Plotting">NumericAndScientific/Plotting</A> 
  -- <SPAN class=anchor id=line-115></SPAN></P>
  <LI>
  <P class=line891><A 
  href="http://wiki.python.org/moin/NumericAndScientific/Libraries">NumericAndScientific/Libraries</A> 
  -- useful libraries <SPAN class=anchor id=line-116></SPAN></P>
  <LI>
  <P class=line891><A 
  href="http://wiki.python.org/moin/NumericAndScientific/Formats">NumericAndScientific/Formats</A> 
  -- modules for reading and writing various file formats <SPAN class=anchor 
  id=line-117></SPAN></P>
  <LI>
  <P class=line891><A 
  href="http://wiki.python.org/moin/NumericBooks">NumericBooks</A> <SPAN 
  class=anchor id=line-118></SPAN></P>
  <LI>
  <P class=line891><A class=http 
  href="http://seal.web.cern.ch/seal/snapshot/work-packages/scripting/index.html">CERN 
  SEAL Python Services</A> -- Automatic Python/C/C++ binding <SPAN class=anchor 
  id=line-119></SPAN></P></LI></UL><SPAN class=anchor id=bottom></SPAN></DIV>
<P><A 
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