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Found 21 Skills
Build clinical/healthcare deep-learning pipelines with PyHealth — loading EHR/signal/imaging datasets (MIMIC-III/IV, eICU, OMOP, SleepEDF, ChestXray14, EHRShot), defining tasks (mortality, readmission, length-of-stay, drug recommendation, sleep staging, ICD coding, EEG events), instantiating models (Transformer, RETAIN, GAMENet, SafeDrug, MICRON, StageNet, AdaCare, CNN/RNN/MLP), training with the PyHealth Trainer, computing clinical metrics, and using medical code utilities (ICD/ATC/NDC/RxNorm lookup and cross-mapping). Use this skill whenever the user mentions PyHealth, MIMIC, eICU, OMOP, EHR modeling, clinical prediction, drug recommendation, sleep staging, medical code mapping, ICD/ATC codes, or any healthcare ML pipeline that fits the dataset → task → model → trainer → metrics pattern, even if "PyHealth" isn't named explicitly.
Rigor Improve implementation leaf skill for auditable candidate implementation in deep learning research repositories. Use when the researcher explicitly authorizes exploratory work on an isolated branch or worktree to transplant modules, adapt a backbone, add LoRA or adapter layers, replace a head, or stitch together meaningful low-risk migration ideas with rollback-aware records in `explore_outputs/`. Do not use for end-to-end exploration orchestration on top of `current_research`, trusted baseline reproduction, conservative debugging, environment setup, verified contribution claims, or default repository analysis.
Rigor Reproduce compatible skill slug for README-first deep learning repository reproduction. Use when the user wants an end-to-end, minimal-trustworthy flow that reads the repository first, selects the smallest documented inference or evaluation target, coordinates intake, setup, trusted execution, optional trusted training, optional repository analysis, and optional paper-gap resolution, enforces conservative patch rules, records evidence assumptions deviations and human decision points, and writes the standardized `repro_outputs/` bundle. Do not use for paper summary, generic environment setup, isolated repo scanning, standalone command execution, silent protocol changes, score chasing, or broad research assistance outside repository-grounded reproduction.
Rigor Intake helper for README-first deep learning repo reproduction. Use when the task is specifically to scan a repository, read the README and common project files, extract documented commands, classify inference, evaluation, and training candidates, and return the smallest trustworthy reproduction plan to the main orchestrator. Do not use for environment setup, asset download, command execution, final reporting, paper lookup, or end-to-end orchestration.
Deep learning framework (PyTorch Lightning). Organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, implement data pipelines, callbacks, logging (W&B, TensorBoard), distributed training (DDP, FSDP, DeepSpeed), for scalable neural network training.
PyTorch deep learning development with transformers, diffusion models, and GPU optimization.
Keras high-level neural network API. Use for deep learning.
Deep learning for single-cell analysis using scvi-tools. This skill should be used when users need (1) data integration and batch correction with scVI/scANVI, (2) ATAC-seq analysis with PeakVI, (3) CITE-seq multi-modal analysis with totalVI, (4) multiome RNA+ATAC analysis with MultiVI, (5) spatial transcriptomics deconvolution with DestVI, (6) label transfer and reference mapping with scANVI/scArches, (7) RNA velocity with veloVI, or (8) any deep learning-based single-cell method. Triggers include mentions of scVI, scANVI, totalVI, PeakVI, MultiVI, DestVI, veloVI, sysVI, scArches, variational autoencoder, VAE, batch correction, data integration, multi-modal, CITE-seq, multiome, reference mapping, latent space.
Write comprehensive literature reviews for medical imaging AI research. Use when writing survey papers, systematic reviews, or literature analyses on topics like segmentation, detection, classification in CT, MRI, X-ray, ultrasound, or pathology imaging. Triggers on requests for "review paper", "survey", "literature review", "综述", "systematic review", or mentions of writing academic reviews on deep learning for medical imaging.
Elite AI/ML Senior Engineer with 20+ years experience. Transforms Claude into a world-class AI researcher and engineer capable of building production-grade ML systems, LLMs, transformers, and computer vision solutions. Use when: (1) Building ML/DL models from scratch or fine-tuning, (2) Designing neural network architectures, (3) Implementing LLMs, transformers, attention mechanisms, (4) Computer vision tasks (object detection, segmentation, GANs), (5) NLP tasks (NER, sentiment, embeddings), (6) MLOps and production deployment, (7) Data preprocessing and feature engineering, (8) Model optimization and debugging, (9) Clean code review for ML projects, (10) Choosing optimal libraries and frameworks. Triggers: "ML", "AI", "deep learning", "neural network", "transformer", "LLM", "computer vision", "NLP", "TensorFlow", "PyTorch", "sklearn", "train model", "fine-tune", "embedding", "CNN", "RNN", "LSTM", "attention", "GPT", "BERT", "diffusion", "GAN", "object detection", "segmentation".
Expert-level machine learning, deep learning, model training, and MLOps
PyTorch deep learning patterns and best practices for building robust, efficient, and reproducible training pipelines, model architectures, and data loading.