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SkillsMP has collected 11 skills from 1nslyn/biomed-agent-kit. Open a skill to review its source and details.
Showing 11 of 11 collected skills.
Process and analyze biomedical text data (clinical notes, radiology reports, PubMed abstracts). Use when: (1) Loading biomedical language models (PubMedBERT, ClinicalBERT, BioBERT, BioGPT) and extracting embeddings, (2) Named entity recognition for medical…
Smart granular commit workflow that groups changes into separate, logically-grouped commits by feature, functionality, or type. Never commits everything at once. No co-author line. Uses Conventional Commits. Use when user says commit, /commit, or commit my…
Load and preprocess biomedical data (DICOM, NIfTI, whole-slide images, tabular clinical data). Use when: (1) Loading DICOM/NIfTI/WSI files and extracting metadata, (2) Intensity normalization for CT/MRI, (3) Stain normalization for histopathology, (4)…
Deploy and optimize trained biomedical ML models for inference. Use when: (1) Exporting models to ONNX or TorchScript, (2) Building inference pipelines with sliding window for 3D volumes or patch-based prediction for WSI, (3) Test-time augmentation (TTA), (4)…
Evaluate biomedical ML models with appropriate metrics and confidence intervals. Use when: (1) Computing classification metrics (AUC-ROC, balanced accuracy, sensitivity, specificity, F1) with confidence intervals, (2) Evaluating segmentation models (Dice,…
Run systematic ML experiments with production-grade patterns. Use when: (1) Setting up experiment grids with cross-validation, (2) Managing GPU memory, multi-GPU worker pools, or OOM protection, (3) Designing patient-level or site-aware data splits, (4)…
Research biomedical and ML papers across the internet, focusing on top venues and publishers. Use when: (1) Searching for state-of-the-art methods in a biomedical domain, (2) Finding papers from top venues (Nature Medicine, Lancet, MICCAI, NeurIPS, ICML,…
Integrate published GitHub repositories into the current project. Use when: (1) Adding a pretrained model or method from a paper's GitHub repo, (2) Wrapping an external tool as a feature extractor or preprocessing step, (3) Resolving dependency conflicts…
Generate publication-quality figures and markdown reports for biomedical ML experiments. Use when: (1) Creating heatmaps, forest plots, radar charts, or sensitivity-specificity scatter plots, (2) Plotting ROC curves, precision-recall curves, or Kaplan-Meier…
Train and fine-tune biomedical ML models with production-grade patterns. Use when: (1) Writing training loops with early stopping and LR scheduling, (2) Transfer learning and fine-tuning pretrained models (freeze/unfreeze, discriminative LR), (3) Mixed…
Bootstrap new biomedical ML research repositories with production-grade structure. Use when: (1) Creating a new research project from scratch, (2) Setting up pyproject.toml with uv, (3) Establishing directory layout, CLAUDE.md, or config patterns for a…