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Author Archives: Dan Gezelter
NeoBio – Bioinformatics algorithms in Java
NeoBio is a Java class library of Computational Biology Algorithms. The first version consists mainly of pairwise sequence alignment algorithms such as the classical dynamic programming methods of Needleman-Wunsch and Smith-Waterman. Find NeoBio – Bioinformatics algorithms in Java at: http://neobio.sourceforge.net
Posted in Life Sciences
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freeFEM3D
freeFEM3D is a 3D version of freeFEM. It is a 3D finite element PDE solver. It does not use standard FEM approximation but is based on fictitious domain method. The main reason for this is the absence of free 3D … Continue reading
Posted in Partial
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freeFem++
FreeFem++ is an implementation of a language dedicated to the finite element method. It provides you a way to solve Partial Differential Equations (PDE) simply. Problems involving partial differential equations (pde) of several branches of physics such as fluid-structure interactions … Continue reading
Posted in Partial
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Aquatic Optics Monte Carlo Model
The AOMC model is an Open Source Aquatic Optics Monte Carlo model. It simulates the propagation of light in an optically shallow, vertically heterogeneous aquatic medium. It is written in FORTRAN 90. Find Aquatic Optics Monte Carlo Model at: http://aomc.fugadeideas.org/
Posted in Earth Sciences
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Synthon.net
An online resource of chemical information provided in a variety of digital formats for the practicing organic chemist. Find Synthon.net at: http://www.synthon.net
Posted in Organic
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GAP – Groups, Algorithms and Programming
GAP is a free system for computational discrete algebra. Find GAP – Groups, Algorithms and Programming at: http://www.gap-system.org/
Posted in Abstract Algebra
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PyGeo: a Dynamic 3d geometry laboratory
PyGeo is a dynamic geometry laboratory and toolkit. PyGeo may be used to explore the most basic concepts of Euclidean geometry at an introductory level, including by elementary schools students and their teachers. But is particularly suitable for exploring more … Continue reading
Posted in Geometry
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COIN-OR
The Computational Infrastructure for Operations Research (COIN-OR) project is an initiative to spur the development of open-source software for the operations research community. Projects include linear and nonlinear optimization solvers and a tabu search framework. Find COIN-OR at: http://www.coin-or.org/
Posted in Optimization
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GLPK
GLPK (GNU Linear Programming Kit) is intended for solving large-scale linear programming (LP), mixed integer programming (MIP), and other related problems. It is a set of routines written in ANSI C and organized in the form of a callable library. … Continue reading
Posted in Optimization
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DoseLab
DoseLab is a set of software programs for quantitative comparison of measured and computed radiation dose distributions. It is written in the Matlab programming language and is easily extensible to more general applications in radiation physics. Find DoseLab at: http://doselab.sourceforge.net/
Posted in Medical Sciences
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