medical-research-skills

interview-mock-partner

Simulates behavioral interview questions for medical professionals.

go-kegg-enrichment

Performs GO (Gene Ontology) and KEGG pathway enrichment analysis on gene lists. Trigger when: - User provides a list of genes (symbols or IDs) and asks for enrichment analysis - User mentions "GO enrichment", "KEGG enrichment", "pathway analysis" - User wants to understand biological functions of gene sets - User provides differentially expressed genes (DEGs) and asks for interpretation - Input: gene list (file or inline), organism (human/mouse/rat), background gene set (optional) - Output: enriched terms, statistics, visualizations (barplot, dotplot, enrichment map)

microscopy-scale-bar-adder

Add scale bars to microscopy images

competitor-trial-monitor

Monitor competitor clinical trial progress and alert on market risks

response-tone-polisher

Polishes response letters by transforming defensive or harsh language into professional, courteous academic prose. Converts phrases like "I will not correct this" into "We respectfully believe the original data sufficiently supports..." to avoid reviewer conflict.

volcano-plot-labeler

Automatically label top significant genes in volcano plots using a force-directed repulsion algorithm to prevent label overlap.

rebuttal-letter-strategist

Strategic response drafting for sharp reviewer criticisms

eln-template-creator

Generate standardized experiment templates for Electronic Laboratory Notebooks

heatmap-beautifier

Professional beautification tool for gene expression heatmaps, automatically adds clustering trees, color annotation tracks, and intelligently optimizes label layout.

dicom-anonymizer

Batch anonymize DICOM medical images by removing patient sensitive information (name, ID, birth date) while preserving image data for research use. Trigger when users need to de-identify medical imaging data, prepare DICOM files for research sharing, or remove PHI from radiology/scanned images.

figure-legend-gen

Generate standardized figure legends for scientific charts and graphs. Trigger when user uploads/requesting legend for research figures, academic papers, or data charts. Supports bar charts, line graphs, scatter plots, box plots, heatmaps, and microscopy images. This tool generates text legends only, not visualizations.

presentation-hook

Creates engaging opening statements and powerful closings for medical presentations.

unstructured-medical-text-miner

Mine unstructured clinical text from MIMIC-IV to extract diagnostic logic and treatment details

automated-soap-note-generator

Transform unstructured clinical input (dictation, transcripts, or rough notes) into standardized SOAP (Subjective, Objective, Assessment, Plan) medical documentation. Use ONLY for initial documentation draft generation; ALL output requires physician review before entering patient records. Not for complex cases requiring nuanced clinical reasoning.

motif-logo-generator

Generate publication-quality sequence logos for DNA or protein motifs from FASTA files or raw sequence lists.

variant-pathogenicity-predictor

Integrate REVEL, CADD, PolyPhen-2, SIFT, and MutationTaster scores to predict variant pathogenicity with ACMG guideline interpretation.

metagenomic-krona-chart

Generate interactive Krona charts (sunburst plots) for metagenomic samples from Kraken2, Bracken, or custom TSV taxonomy abundance data.

spatial-transcriptomics-mapper

Map spatial transcriptomics data from 10x Genomics Visium or Xenium onto tissue section images, visualizing gene expression and spatial clustering distributions.

single-cell-rnaseq-pipeline

Generate single-cell RNA-seq analysis code templates for Seurat and Scanpy, supporting QC, clustering, visualization, and downstream analysis. Trigger when users need scRNA-seq analysis pipelines, preprocessing workflows, or batch correction code.

journal-cover-prompter

Use when creating journal cover images, generating scientific artwork prompts, or designing graphical abstracts. Creates detailed prompts for AI image generators to produce publication-quality scientific visuals.

digital-twin-discharge-drafter

Use when drafting patient discharge summaries, creating personalized discharge instructions, simulating post-discharge outcomes, reducing hospital readmissions, or optimizing care transitions. Generates AI-enhanced discharge documentation with digital twin predictions for improved patient safety.

discussion-section-architect

Structures and writes discussion sections for academic papers and research reports. Use when writing a discussion section, interpreting research results, connecting findings to existing literature, addressing study limitations, synthesizing conclusions, or drafting any part of an academic discussion. Helps researchers organize arguments, contextualize data, and produce clear, publication-ready discussion prose.

graphical-abstract-wizard

Generate graphical abstract layout recommendations based on paper abstracts

code-refactor-for-reproducibility

Transforms research code into publication-ready, reproducible workflows. Adds documentation, implements error handling, creates environment specifications, and ensures computational reproducibility for scientific publications.

adverse-event-narrative

Generate CIOMS-compliant adverse event narratives for Individual Case Safety Reports (ICSR). Creates structured pharmacovigilance documents following CIOMS I and ICH E2B standards from case data for regulatory submission to health authorities.