Comments
Code comments and annotations
visualize-repo
by BuilderIO
Open or create a repo-native visual documentation workspace backed by local Plan MDX files. Use when the user asks to visualize a repository, create durable visual docs for APIs/components/models/flows, launch a visual repo viewer, review repo docs like a visual IDE, or collect Plan comments that should become coding-agent changes.
review-prs
by BuilderIO
Review recent BuilderIO/agent-native human pull requests, approve eligible PRs from liamdebeasi and other safe internal fixes under the internal-author and owner exceptions, skip bots, steve8708, and drafts, and recap every human disposition. Use for scheduled or manual PR review sweeps.
lamindb
by K-Dense-AI
This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets (scRNA-seq, spatial, flow cytometry, etc.), tracking computational workflows, curating and validating data with biological ontologies, building data lakehouses, or ensuring data lineage and reproducibility in biological research. Covers data management, annotation, ontologies (genes, cell types, diseases, tissues), schema validation, integrations with workflow managers (Nextflow, Snakemake) and MLOps platforms (W&B, MLflow), and deployment strategies.
etetoolkit
by K-Dense-AI
Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics.
histolab
by K-Dense-AI
Lightweight WSI tile extraction and preprocessing. Use for basic slide processing tissue detection, tile extraction, stain normalization for H&E images. Best for simple pipelines, dataset preparation, quick tile-based analysis. For advanced spatial proteomics, multiplexed imaging, or deep learning pipelines use pathml.
imaging-data-commons
by K-Dense-AI
Query and download public cancer imaging data from NCI Imaging Data Commons using idc-index. Use for accessing large-scale radiology (CT, MR, PET) and pathology datasets for AI training or research. No authentication required. Query by metadata, visualize in browser, check licenses.
docx
by K-Dense-AI
"Use this skill whenever the user wants to create, read, edit, or manipulate Word documents (.docx files). Triggers include: any mention of 'Word doc', 'word document', '.docx', or requests to produce professional documents with formatting like tables of contents, headings, page numbers, or letterheads. Also use when extracting or reorganizing content from .docx files, inserting or replacing images in documents, performing find-and-replace in Word files, working with tracked changes or comments, or converting content into a polished Word document. If the user asks for a 'report', 'memo', 'letter', 'template', or similar deliverable as a Word or .docx file, use this skill. Do NOT use for PDFs, spreadsheets, Google Docs, or general coding tasks unrelated to document generation."
code-simplification
by addyosmani
Simplifies code for clarity. Use when refactoring code for clarity without changing behavior. Use when code works but is harder to read, maintain, or extend than it should be. Use when reviewing code that has accumulated unnecessary complexity.
claude-code-plugins
by melodic-software
"Orchestrate worker subagents to execute an approved plan — the main window composes scope-fenced briefs, dispatches workers, verifies their returns against direct evidence, and builds main-side instead of editing inline. Use when: 'dispatch this to workers', 'run this with subagents', 'execute the plan in parallel', 'fan the plan out', or the plan routes phases to worker surfaces or the session runs autonomously; for interactive all-inline execution use /implementation:implement instead."
pull-request
by basicmachines-co
Drive GitHub pull request work end to end. Use when Codex is asked to open, update, describe, push to, monitor, review, address comments on, declare ready, or merge a PR. Covers branch hygiene, PR descriptions with why/what/testing/risk, CI checks, Codex review-loop monitoring, comment handling, and the final merge gate.
pr-review-loop
by basicmachines-co
Enforce the Basic Machines GitHub PR review loop before merging. Use whenever Codex is preparing to merge, squash-merge, auto-merge, declare a PR ready, monitor Codex comments, address review feedback, or wait for Codex approval on a GitHub PR, especially when the user says "approved", "merge", "ship", "PR is ready", "monitor Codex comments", or "address Codex feedback".
fix-pr-issues
by basicmachines-co
Use when addressing Basic Memory pull request feedback, failed checks, or Codex review blockers, then re-running the latest-head review gate.
onboard
by pbakaus
Design or improve onboarding flows, empty states, and first-time user experiences. Helps users get started successfully and understand value quickly.
anndata
by K-Dense-AI
Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.
clinvar-database
by K-Dense-AI
Query NCBI ClinVar for variant clinical significance. Search by gene/position, interpret pathogenicity classifications, access via E-utilities API or FTP, annotate VCFs, for genomic medicine.
claude-code-plugins
by melodic-software
"Prints the operator's read-only morning view of the current GitHub repo in one pass: open counts per queue label, merge-ready PRs, parked decisions with their RECOMMENDED lines, and loop-lane telemetry freshness. Use when: 'morning brief', 'morning view', 'ops dashboard', 'what needs attention', 'daily standup view', 'operator morning pass', 'queues and merge-ready'. Never mutates issues, PRs, labels, or comments."
claude-code-plugins
by melodic-software
"One-shot plain-language explainer — drops any concept, code, error, architecture, or the previous assistant response to genuinely plain words (concrete analogy, zero jargon), then layers altitude up only on request (high-school, then peer level). Use when: 'I don't understand this', 'I don't get it', 'what does this actually do', 'what does this mean', 'explain simply', 'ELI5', 'rephrase that'. Empty argument targets the previous assistant response (anaphora), so 'I don't get it' needs no topic named. This changes ALTITUDE — trades precision for plain words; when the ask is instead to reorganize a dense message faithfully without losing precision (chunk it one-decision-at-a-time, define its jargon, surface the decisions), that is a STRUCTURE change, adhd:clarify (if installed), not an altitude drop. Sibling to education:teach — hand off there for multi-session coaching; this is a single-shot comprehension check, not ongoing tutoring."
xss-html-injection
by Sekolah76
"Execute comprehensive client-side injection vulnerability assessments on web applications to identify XSS and HTML injection flaws, demonstrate exploitation techniques for session hijacking and credential theft, and validate input sanitization and output encoding mechanisms."
sql-injection-testing
by Sekolah76
"Execute comprehensive SQL injection vulnerability assessments on web applications to identify database security flaws, demonstrate exploitation techniques, and validate input sanitization mechanisms."
html-injection-testing
by Sekolah76
"Identify and exploit HTML injection vulnerabilities that allow attackers to inject malicious HTML content into web applications. This vulnerability enables attackers to modify page appearance, create phishing pages, and steal user credentials through injected forms."
reverse-engineer
by Sekolah76
Expert reverse engineer specializing in binary analysis, disassembly, decompilation, and software analysis. Masters IDA Pro, Ghidra, radare2, x64dbg, and modern RE toolchains.
gene-database
by K-Dense-AI
Query NCBI Gene via E-utilities/Datasets API. Search by symbol/ID, retrieve gene info (RefSeqs, GO, locations, phenotypes), batch lookups, for gene annotation and functional analysis.
threads-auto-reply
by Sekolah76
"Threads affiliate auto-reply. v10 stealth: 9router LLM + burst-rest scheduler + sleep window + log-normal delay. See refs/stealth-v10-architecture.md, refs/9router-model-selection.md, refs/moderation-false-positives.md, scripts/threads_human_behavior.py, scripts/threads_content_gen.py. v9 templates fallback. Triggers: 'reply threads', 'komen threads', 'nimbrung'."
vellum-github-app-setup
by vellum-ai
Create and configure a GitHub App so the assistant can push commits, open PRs, and comment under its own bot identity. Use when the user wants the assistant to have its own GitHub identity, or when setting up git push access for the first time.