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    Archive for May 10th, 2007

    Choosing cell modelling software: Virtual Cell, Cytoscape, CellDesigner, E-Cell

    10th May 2007

    I’m planning to reconstruct (based on literature and some original research) a specific cellular regulatory network. For this I decided to use some specialized biological modelling software. The requirements I had were pretty simple:

    • must have SBML support. SBML appears de-facto standard for biological model notation;
    • must be fairly frequently updated;
    • should be feature-packed and easy to use. However, this requirement can only be checked after some use, and I was pre-selecting, not reviewing.

    Software put into the title of the post was found to be the most mature and interesting from the usage perspective. However, there are more than those mentioned software tools reviewed. Reviews are based primarily on the information from official websites and documentation; some tools (like VirtualCell) are reviewed somewhat more thoroughly.
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    Posted in Bioinformatics, Science, Software | 2 Comments »