- Amber: a group of tools for molecular modeling, used primarily in biological macromolecules. The packet includes the Amber force fields (which are used by many applications that calculate molecular dynamics), the Amber 11 software and the AmberTools set. The AmberTools package can be used independently, but its installation is required to use Amber 11.
- Jupiter: an interactive computing environment allowing the user to make documents containing code and its results, formatted code (Markdown) or graphs/images/equations (LaTex), etc. The basic kernel has a Python interpreter.
- Matlab: launching tasks on the cluster from the Matlab level.
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