seams-core

Trajectory analyzer

Analyzes molecular dynamics trajectories to infer structural properties of molecules

The d-SEAMS C++ core engine

GitHub

35 stars
5 watching
10 forks
Language: C++
last commit: about 2 years ago
Linked from 2 awesome lists

analysis-frameworkd-seamsluamolecular-dynamicsmolecular-dynamics-simulationnixtrajectoriestrajectory-analysis

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