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JOELib

Posted on March 26, 2002 by Dan Gezelter

JOELib/JOELib2 is a cheminformatics library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available. Find JOELib at: http://sourceforge.net/projects/joelib/

Posted in Theoretical and Computational | Leave a comment

ScrumPy

Posted on March 26, 2002 by Dan Gezelter

A package of Python modules that allows you to do metabolic modelling. Find ScrumPy at: http://mudshark.brookes.ac.uk/ScrumPy

Posted in Biochemistry | Leave a comment

Math::ODE

Posted on December 15, 2001 by Dan Gezelter

Solve N-th Order Ordinary Differential Equations with Perl. Object Oriented interface and easy to use. Find Math::ODE at: http://www.leto.net/code/Math-ODE/

Posted in Ordinary | Leave a comment

Ode

Posted on December 15, 2001 by Dan Gezelter

Ode is a Unix command-line ordinary differential equation solver. It is intended for use as a filter in pipelines, in the spirit of statistics and data-processing codes like TISEAN and |stat. Find Ode at: http://keithbriggs.info/Ode.html

Posted in Ordinary | Leave a comment

GSL – The GNU Scientific Library, a free numerical library for C programmers

Posted on December 15, 2001 by Dan Gezelter

A free numerical library for scientific computing under the GNU General Public license. Find GSL – The GNU Scientific Library, a free numerical library for C programmers at: http://sources.redhat.com/gsl/

Posted in Numerical Libraries | Leave a comment

VEGa

Posted on October 28, 2001 by Dan Gezelter

VEGA was developed to create a bridge between most of the molecular software packages. In this tool have been also implemented some features that are useful to analyze, display and manage the 3D structures of molecules. Find VEGa at: http://users.unimi.it/~ddl

Posted in Molecule Viewers and Editors | Leave a comment

Debrief

Posted on October 25, 2001 by Dan Gezelter

Debrief is a mature Open Source Java application for viewing ship and submarine vessel tracks in 2 and 3 dimensions. Find Debrief at: http://www.debrief.info/index.shtml

Posted in Oceanography | Leave a comment

pdnmesh: finite element program

Posted on September 9, 2001 by Dan Gezelter

A free, opensource, finite element program. Find pdnmesh: finite element program at: http://pdnmesh.sourceforge.net

Posted in Engineering | Leave a comment

GEOSS

Posted on September 5, 2001 by Dan Gezelter

Gene Expression Open Source System (GEOSS) is a complete system used to store and analyze gene expression data. It has a relational database, a web interface, and an analysis suite. There is also a repository for each user’s files, and … Continue reading →

Posted in Bioinformatics, Genetics | Leave a comment

Ensembl Genome Server

Posted on August 14, 2001 by Dan Gezelter

Ensembl is a joint project between EMBL-EBI and the Sanger Centre to develop a software system which produces and maintains automatic annotation on eukaryotic genomes. Find Ensembl Genome Server at: http://www.ensembl.org/

Posted in Life Sciences | Leave a comment

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