576 skills · sorted by relevance
Predict three-dimensional structures of complexes containing proteins, RNA, DNA, and small molecules with Chai-1. Compare candidate structures using confidence scores and clash indicators, or run repeated predictions from Python to evaluate designed binders.
Turn observations or preliminary data into competing scientific hypotheses grounded in literature. It compares explanations, evaluates how they could be tested or disproved, and proposes experiments and measurable predictions in a structured report with diagrams.
Turn observations or preliminary data into competing scientific hypotheses grounded in literature. Develop explanations, assess what could disprove them, and produce testable predictions and experimental designs in a structured report with diagrams.
Build testable scientific hypotheses from observations or preliminary data. Compare competing explanations against published evidence, define measurable predictions, and propose experiments, then organize the findings into a research report with diagrams and detailed supporting material.
Forecast sales, sensor readings, and other single-variable time series with Google's TimesFM, without training a custom model. Accept CSV files, DataFrames, or arrays and obtain forecast values with prediction intervals that express uncertainty.
Develop and review machine learning approaches through at least three rounds of critique and refinement. Compare models with simple reference predictions, question data assumptions, and investigate overfitting, feature choices, and evaluation methods before accepting a solution.
Evaluate object detection predictions against labeled ground truth with TAO Data Services. Produce class-level precision, recall, accuracy, and AP, a detection quality measure, with CSV results and precision–recall plots for reviewing model performance.
Predict structures of proteins, DNA, RNA, and complexes with small molecules using OpenFold3. Guides hosted API requests or local Docker setup, saves structure files, and helps interpret confidence scores supplied with the predictions.
Identify tumor neoantigens from somatic variants with pVACtools (pVACseq/pVACfuse/pVACbind/pVACvector/pVACview) for personalized cancer vaccines and checkpoint biomarkers. Encodes the field's hard truth that binding prediction is the easy, near-solved part and single-digit-percent PPV lives downstream — so it centers clonality/CCF, HLA LOH (the silent invalidator), expression, proximal-variant phasing, agretopicity/foreignness quality, and the predicted->presented->immunogenic validation tiers. Use when nominating vaccine targets, ranking neoantigens, or building a tumor-to-candidate pipeline. Binding details in mhc-binding-prediction; ranking in immunogenicity-scoring.
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Interpret and explain a trained tabular machine-learning model (classification or regression) in MATLAB. Find which predictors, features, or columns matter most; explain why the model made a specific prediction, including diagnosing predictions it got wrong; show how a predictor affects the output; and compare how the model behaves across cohorts or subgroups. Uses model-agnostic techniques and model-native measures, and works on custom models (such as a dlnetwork) through a prediction function handle. Use for model interpretability, explainability, and feature-importance questions on tabular data, not for training, tuning, feature selection, deploying models, or models trained on image, text, signal, or other non-tabular data.
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Managing privacy risks from AI-driven inferences about individuals including derived data classification, profiling under GDPR Art. 22, inference accuracy obligations, and controlling automated personality/behaviour predictions. Keywords: AI inference, derived data, profiling, automated predictions, GDPR.
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Query AlphaFold protein structure predictions. Use when user asks about protein structure, 3D structure, protein folding, or structure prediction. Triggers on "alphafold", "protein structure", "3D structure", "folding", "pLDDT", "structure prediction".
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The fusion of trend prediction and AI content generation: detecting emerging trends before they peak and generating content that rides—or creates—the wave. This is marketing alchemy, transmuting data signals into viral gold. Traditional trend marketing is reactive: see trend, create content, hope you're not too late. AI Trend Alchemy is predictive: detect signal, generate content, be there as the wave crests. The combination of AI trend detection and AI content generation creates a feedback loop that can outpace human competition. This skill combines data science intuition with creative generation, reading the digital tea leaves while simultaneously conjuring the content that captures the moment. It's part analyst, part creator, part prophet. Use when "trend, trending, viral, predict, emerging, what's next, cultural moment, before it peaks, early signal, catch the wave, trend prediction, going viral, trend, prediction, viral, cultural, emerging, timing, alchemy, detection" mentioned.
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Participate in DojoZero prediction contests. Use when user wants to find games, join prediction-mode trials, check event status, submit predictions, or view leaderboards.
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Turn a set of structures into absorption, distribution, metabolism, excretion, and toxicity estimates with ADMET-AI, and read them as a developability verdict rather than a table of numbers. Use this skill to run batch prediction over a library, interpret each endpoint against its DrugBank-approved percentile, and flag the liabilities that stop a series — hERG blockade, CYP inhibition, poor Caco-2 permeability, high clearance, and plasma protein binding. Also trigger on ADMET-AI, admet_ai, Chemprop-RDKit, hERG liability, CYP3A4 inhibition, Caco-2, bioavailability prediction, or developability triage.
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Work with BioReason-Pro predictions and reasoning traces for protein function. Use when: comparing BioReason outputs against curated reviews, converting web exports to YAML, reviewing reasoning trace quality, or running the SFT/RL comparison. Triggers: "bioreason", "GO-GPT predictions", "reasoning trace review", "bioreason comparison", "SFT vs RL".
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Audit legal case prediction systems for bias, fairness, accuracy, and ethical guardrails. Use when: 'check my prediction model for bias', 'audit case outcome fairness', 'evaluate legal ML model', 'review sentencing prediction ethics', 'analyze bail risk algorithm', 'fairness metrics for justice system AI'.
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Validate protein designs using AlphaFold2 structure prediction. Use this skill when: (1) Validating designed sequences fold correctly, (2) Predicting binder-target complex structures, (3) Calculating confidence metrics (pLDDT, pTM, ipTM), (4) Self-consistency validation of designs, (5) Multi-chain complex prediction with AlphaFold-Multimer.
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Comprehensive ADMET (Absorption, Distribution, Metabolism, Excretion, Toxicity) profiling for drug candidates. Integrates ADMET-AI predictions, SwissADME drug-likeness, PubChemTox experimental toxicity, ChEMBL clinical data, Lipinski rule-of-five, and CYP interaction data. Use for drug-likeness assessment, BBB penetration, bioavailability, hepatotoxicity prediction, ADME/PK profiling, or screening compound libraries before lab testing.
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Identify tumor neoantigens from somatic variants with pVACtools (pVACseq/pVACfuse/pVACbind/pVACvector/pVACview) for personalized cancer vaccines and checkpoint biomarkers. Encodes the field's hard truth that binding prediction is the easy, near-solved part and single-digit-percent PPV lives downstream — so it centers clonality/CCF, HLA LOH (the silent invalidator), expression, proximal-variant phasing, agretopicity/foreignness quality, and the predicted->presented->immunogenic validation tiers. Use when nominating vaccine targets, ranking neoantigens, or building a tumor-to-candidate pipeline. Binding details in mhc-binding-prediction; ranking in immunogenicity-scoring.
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Identify tumor neoantigens from somatic variants with pVACtools (pVACseq/pVACfuse/pVACbind/pVACvector/pVACview) for personalized cancer vaccines and checkpoint biomarkers. Encodes the field's hard truth that binding prediction is the easy, near-solved part and single-digit-percent PPV lives downstream — so it centers clonality/CCF, HLA LOH (the silent invalidator), expression, proximal-variant phasing, agretopicity/foreignness quality, and the predicted->presented->immunogenic validation tiers. Use when nominating vaccine targets, ranking neoantigens, or building a tumor-to-candidate pipeline. Binding details in mhc-binding-prediction; ranking in immunogenicity-scoring.
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Evaluate large language models on shared tests of knowledge, reasoning, and code generation with lm-evaluation-harness. Save scores and individual predictions, compare models in tables, and track performance across saved stages of model training.
Run machine learning training and predictions on cloud GPUs, then publish models as APIs that other applications can call. The skill guides Python-based setup, automatic scaling, persistent storage, parallel processing, and scheduled jobs.
Plan, train, evaluate, and deploy neural networks using Flow Nexus cloud infrastructure. Coordinate training across multiple computing environments, tune training settings, and manage model versions, predictions, and ongoing performance monitoring.