scientific-computing
25
clinical-research-pitfalls
Avoid common methodological mistakes in clinical research with EHR databases. Covers immortal time bias, information leakage, selection bias, and other critical pitfalls.
hannesill
research
sorting
stars
current ordering strategy
query
all entries
refine the visible subset
scientific-computing
25
clinical-research-analysis-framework
Guided workflow for statistical and ML analysis of clinical data. Use when planning or executing research analyses on MIMIC, eICU, or similar EHR data. Ensures methodological rigor through structured consultation, assumption checking, and stepwise execution with audit trails.
hannesill
research
scientific-computing
25
equiflow
Generate equity-focused cohort selection flow diagrams. Tracks demographic, socioeconomic, and outcome variables at each exclusion step and calculates SMD to detect selection bias. Use for cohort construction, CONSORT-style diagrams, or bias detection in clinical ML/research.
hannesill
research
scientific-computing
25
signal-sciences
Signal Sciences integration. Manage data, records, and automate workflows. Use when the user wants to interact with Signal Sciences data.
membranedev
research
scientific-computing
25
mimic-eicu-mapping
Map equivalent concepts between MIMIC-IV and eICU databases. Use for multi-database studies, external validation, or understanding structural differences between databases.
hannesill
research
scientific-computing
25
particles-lifecycle
Particle lifecycle management—emission/spawning, death conditions, object pooling, trails, fade-in/out, and state transitions. Use when particles need birth/death cycles, continuous emission, trail effects, or memory-efficient recycling.
tanepiper
research
scientific-computing
24
research-analyst
Expert research analyst specializing in comprehensive information gathering, synthesis, and insight generation. Masters research methodologies, data analysis, and report creation with focus on delivering actionable intelligence that drives informed decision-making.
zenobi-us
research
scientific-computing
24
claude-light
Expert assistant for conducting remote experiments with Claude-Light - a web-accessible RGB LED and spectral sensor instrument for statistics, regression, optimization, and design of experiments
jkitchin
research
scientific-computing
24
variant-interpretation-acmg
Classifies genetic variants according to ACMG (American College of Medical Genetics) guidelines.
mdbabumiamssm
research
scientific-computing
24
materials-properties
Expert assistant for calculating materials properties from first-principles using ASE - structure relaxation, surface energies, adsorption, reaction barriers, phonons, elastic constants, and thermodynamic modeling with proper scientific methodology
jkitchin
research
scientific-computing
24
materials-databases
Expert assistant for accessing materials databases (AFLOW and Materials Project) - query crystal structures, materials properties, thermodynamic data, and computational results from comprehensive databases
jkitchin
research
scientific-computing
24
design-of-experiments
Expert guidance for Design of Experiments (DOE) in Python - interactive goal-driven design selection, classical DOE (factorial, response surface, screening), Bayesian optimization with Gaussian processes, model-driven optimal designs, active learning, and sequential experimentation; includes pyDOE3, pycse, BoTorch, Ax, scikit-optimize, statsmodels
jkitchin
research
scientific-computing
24
adaptyv
Cloud laboratory platform for automated protein testing and validation. Use when designing proteins and needing experimental validation including binding assays, expression testing, thermostability measurements, enzyme activity assays, or protein sequence optimization. Also use for submitting experiments via API, tracking experiment status, downloading results, optimizing protein sequences for better expression using computational tools (NetSolP, SoluProt, SolubleMPNN, ESM), or managing protein design workflows with wet-lab validation.
oimiragieo
research
scientific-computing
24
digital-twin-clinical-agent
AI-powered patient digital twin creation for clinical trial simulation, treatment outcome prediction, and personalized medicine using real-world data and multi-omics integration.
mdbabumiamssm
research
scientific-computing
24
neurokit2
Comprehensive biosignal processing toolkit for analyzing physiological data including ECG, EEG, EDA, RSP, PPG, EMG, and EOG signals. Use this skill when processing cardiovascular signals, brain activity, electrodermal responses, respiratory patterns, muscle activity, or eye movements. Applicable for heart rate variability analysis, event-related potentials, complexity measures, autonomic nervous system assessment, psychophysiology research, and multi-modal physiological signal integration.
oimiragieo
research
scientific-computing
24
exploratory-data-analysis
Perform comprehensive exploratory data analysis on scientific data files across 200+ file formats. This skill should be used when analyzing any scientific data file to understand its structure, content, quality, and characteristics. Automatically detects file type and generates detailed markdown reports with format-specific analysis, quality metrics, and downstream analysis recommendations. Covers chemistry, bioinformatics, microscopy, spectroscopy, proteomics, metabolomics, and general scientific data formats.
oimiragieo
research
scientific-computing
24
omero-integration
Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.
oimiragieo
research
scientific-computing
24
scientific-skills
Comprehensive scientific research toolkit with 139 specialized skills for biology, chemistry, medicine, data science, and computational research. Transforms Claude into an AI research assistant with access to scientific databases, analysis tools, and domain-specific workflows.
oimiragieo
research
scientific-computing
24
benchling-integration
Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.
oimiragieo
research
scientific-computing
24
spatial-agent
An agent that interprets spatial transcriptomics data to propose mechanistic hypotheses and analyze tissue organization.
mdbabumiamssm
research