Expert-thinking subagents for molecular & cell biology: genetics, genomics, omics, biochemistry, biophysics, microbiology, immunology, virology, and structural/synthetic/systems biology.
63 agents
0
claude
sci-engineering-simulation
Discrete-event simulation, multi-objective optimization, CFD, and molecular dynamics.
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Plugin sci-engineering-simulation from marketplace plugin-place in galeep/plugin-place. Commands read from the repo's manifest — today.
What it installs
Skills (5)
fluidsimPlan, configure, inspect, restart, and analyze bounded FluidSim computational-fluid-dynamics simulations with explicit numerical-validity and HPC safety checks. Use for FluidSim solver selection, parameter review, FFT/MPI setup, output diagnostics, or restart compatibility.
molecular-dynamicsRun and analyze molecular dynamics simulations with OpenMM and MDAnalysis. Set up protein/small molecule systems, define force fields, run energy minimization and production MD, analyze trajectories (RMSD, RMSF, contact maps, free energy surfaces). For structural biology, drug binding, and biophysic
openpivParticle Image Velocimetry (PIV) analysis with OpenPIV. Use when extracting velocity fields from PIV image pairs, analyzing fluid dynamics or flow visualization experiments, cross-correlating interrogation windows, validating and replacing spurious PIV vectors, or computing vorticity, strain rate, a
pymooMulti-objective optimization framework. NSGA-II, NSGA-III, MOEA/D, Pareto fronts, constraint handling, benchmarks (ZDT, DTLZ), for engineering design and optimization problems.
simpyBuild, inspect, test, and analyze bounded process-based discrete-event simulations with SimPy, including events, resources, interrupts, monitoring, replications, warm-up, and reproducible output analysis.
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