gexijin

Produce Word (.docx) documents from markdown manuscript sections. Use when asked to generate a Word document, create a docx, compile the manuscript, or export to Word. Assembles markdown sections, embeds figures/tables, and converts via pandoc with journal-ready formatting.

Search PubMed for scientific literature. Use when asked to find papers, search literature, look up publications, or gather references on a topic. Returns article titles, authors, abstracts, and PMIDs.

Analyze DNA microarray data from GEO datasets. Use when asked to analyze microarray data, perform differential expression analysis, or when given a GEO accession (GSE*). Handles Affymetrix (CEL files) and Illumina (BeadChip) platforms with QC, normalization, statistical modeling, and gene ID mapping.

Analyze bulk RNA-seq count data using DESeq2. Use when asked to analyze RNA-seq data, perform differential expression analysis from count matrices, or when given a GEO accession (GSE*) with RNA-seq data. Handles raw count matrices with QC, normalization, statistical modeling, and gene ID mapping.

Execute tasks using OpenAI's Codex CLI. Use when asked to run codex, use OpenAI for code review, or delegate coding tasks to Codex. Supports non-interactive execution, code review, and task automation.

Generates comprehensive reports on recent company developments using web search. Use when analyzing stocks, researching companies, evaluating investments, or when users mention company names, stock tickers, market analysis, or financial research.

Retrieves scientific papers from PubMed and creates plain-language research summaries. Use when users ask about medical research, scientific studies, clinical trials, disease treatments, or want to understand recent scientific literature on any biomedical topic.

Reviews all staged/unstaged R code changes in a GitHub repo before the user pushes to a branch. Use this skill whenever the user wants to review their code changes before pushing, asks if their code is "ready to push", wants a pre-push check, or says things like "review my changes", "check my code before I push", "is my R code good to go", or "pre-push review". Works both automatically (via git diff in bash) and manually (user pastes a diff). Focuses on bugs & logic errors, security vulnerabilities, performance issues, and test coverage in R code.