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Found 7 Skills
Single-cell trajectory inference pipeline covering diffusion pseudotime (DPT), PAGA, RNA velocity with scVelo, and fate mapping with CellRank. Use when the user mentions pseudotime, trajectory, lineage, differentiation, RNA velocity, scVelo, CellRank, PAGA, diffusion map, fate probabilities, terminal states, spliced/unspliced, velocyto, order cells by development, cell differentiation path, cell fate, branching analysis, monocle, developmental trajectory, stem cell differentiation, progenitor to mature, how do cells differentiate, cell lineage tree, velocity arrows, fate mapping, transition probabilities, root cells, terminal states, absorption probabilities, or latent time.
Extracts frames at regular intervals from dashcam videos to create compact visual summaries of vehicle movement and location changes. This skill should be used when users need motion trajectory analysis, want to optimize dashcam storage by 90%+, need quick visual review of hours of footage, or want to create visual timelines of trips.
Analyze previous Jetty workflow runs and propose targeted improvements to your runbook. Use when the user wants to optimize, improve, or debug a runbook based on past execution results — including 'optimize runbook', 'improve runbook', 'why is my runbook failing', 'analyze my runs', 'runbook not working well', 'make my runbook better', 'debug runbook performance', or 'learn from past runs'. Also trigger when the user mentions trajectory analysis, run patterns, or evaluation score improvements.
Run 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 biophysics.
Meta-prompting framework for critiquing responses, analyzing solution trajectories, and evaluating AI-generated content quality
Comprehensive guide for MDAnalysis - the Python library for analyzing molecular dynamics trajectories. Use for trajectory loading, RMSD/RMSF calculations, distance/angle/dihedral analysis, atom selections, hydrogen bonds, solvent accessible surface area, protein structure analysis, membrane analysis, and integration with Biopython. Essential for MD simulation analysis.
Path traced by solution through phase space