OpenScience / Software



BioInformatics and GIS applications

Posted on September 21, 2004 by Dan Gezelter

Two more links today (both user-contributed). DeltaStat performs statistical calculations on data from 2-D gel experiments and can be located in our BioInformatics section. The other link is for SAGA, the System for an Automated Geo-scientific Analysis, which can be … Continue reading →

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DeltaStat

Posted on September 21, 2004 by Dan Gezelter

DeltaStat performs statistical calculations on data from 2D gel experiments. DeltaStat combines the power of R, a language for statistics, with the efficiency of a relational database to handle the large amount of data generated in proteomics experiments. Find DeltaStat … Continue reading →

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Posted in Bioinformatics | Leave a comment

Two new user-contributed links

Posted on September 21, 2004 by Dan Gezelter

Today we have added links to GAMGI in the Molecule Viewers and Editors section and MultiWell in the Chemical Kinetics section. Thanks to the two OpenScience users who pointed these out!

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GAMGI

Posted on September 21, 2004 by Dan Gezelter

The General Atomistic Modelling Graphic Interface. GAMGI aims to be useful for: 1) the scientific community working in Atomistic Modelling, that needs a graphic interface to build input data and to view and analyse output data, calculated with Ab-Initio and … Continue reading →

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Posted in Molecule Viewers and Editors | Leave a comment

Jalview

Posted on August 20, 2004 by Dan Gezelter

Jalview is a multiple alignment editor written entirely in java. Find Jalview at: http://www.ebi.ac.uk/~michele/jalview/

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Readseq

Posted on August 20, 2004 by Dan Gezelter

Read & reformat biosequences Find Readseq at: http://iubio.bio.indiana.edu/soft/molbio/readseq/java/

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When more is more: Parallel Computing

Posted on August 19, 2004 by Dan Gezelter

We’ve added two new links to very useful tools for scientific programming. Both are in our Data Communication section. MPICH is the ubiquitous MPI implementation, which our own research groups have been using for years. LAM/MPI is a newer MPI … Continue reading →

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LAM/MPI Parallel Computing

Posted on August 19, 2004 by Dan Gezelter

LAM/MPI is a high-quality open-source implementation of the Message Passing Interface specification, including all of MPI-1.2 and much of MPI-2. Intended for production as well as research use, LAM/MPI includes a rich set of features for system administrators, parallel programmers, … Continue reading →

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Monte Carlo

Posted on August 18, 2004 by Dan Gezelter

There is a new user-suggested entry today in our Monte Carlo methods section. MCCCS Towhee is an advanced Monte Carlo simulation package which can do Gibbs ensemble MC simulations in liquid, solid, and porous phases. Do you have a favorite … Continue reading →

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MCCCS Towhee

Posted on August 18, 2004 by Dan Gezelter

Towhee is a Monte Carlo molecular simulation code originally designed for the prediction of fluid phase equilibria using atom-based force fields and the Gibbs ensemble with particular attention paid to algorithms addressing molecule conformation sampling. The code has subsequently been … Continue reading →

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