NeVibeCode · 676 items
Skills for Science and research
Skills for Science and research: what each one does, an install command and example prompts.
foldseek-structural-search skill Sends a protein 3D structure file to the Foldseek API and returns structurally similar proteins. Built for cases where you have coordinates, not just a sequence.
CX Codex +1
2,100installs
interpro-database skill Queries protein domains, families, and functional sites through the InterPro API. Integrates 14 member databases and automates genome annotations with GO terms.
CX Codex +1
2,100installs
string-database skill This skill queries STRING for protein interactions, functional enrichment, and homology. Use it when protein evidence or pathway analysis is needed.
CX Codex +1
2,100installs
embl-ebi-ols skill This skill queries the EMBL-EBI Ontology Lookup Service for terms, definitions and hierarchies. Useful when an agent works with diseases, phenotypes or gene functions.
CX Codex +1
2,100installs
reactome-database skill Connects Reactome services for gene list enrichment, identifier mapping, and pathway exports. Useful for running biological data queries inside coding agents.
CX Codex +1
2,200installs
dbsnp-database skill A skill for NCBI dbSNP: resolves rsIDs from coordinates or HGVS, returns variant type, gene associations, clinical significance and allele frequencies.
CX Codex +1
2,200installs
protein-sequence-similarity-search skill Runs a homology search on a protein sequence with MMseqs2 or BLAST, interprets the alignment metrics and writes a Markdown table of top hits.
CX Codex +1
2,100installs
protein-sequence-msa skill Runs multiple sequence alignment for protein sequences via EBI Clustal Omega. Helps evaluate sequence similarity, domain conservation, and key residue preservation.
CX Codex +1
2,100installs
ara-rigor-reviewer skill Reviews an ARA for epistemic rigor before publication or release. It examines evidence, claims, and research method after Level 1 validation.
CX Codex +1
805installs
ara-compiler skill Turns papers, code, experiment logs, and notes into a structured research artifact with claims, evidence, an exploration graph, and code stubs.
CX Codex +1
786installs
ara-research-manager skill A skill that reviews the session after a task is done and writes decisions, experiments and dead ends into the ara/ directory.
CX Codex +1
785installs
academic-humanizer skill Edits AI-assisted scientific papers and grant proposals into clear academic prose. It keeps citations and numbers intact without casualizing the text.
CX Codex +1
539installs
lattice-crypto-attacks skill A playbook for lattice cryptanalysis: Coppersmith, LLL/BKZ, DSA and ECDSA nonce recovery. Built for CTF work and weak implementations.
CX Codex +1
3,500installs
paper-figure skill This skill generates plots, tables, and multi-panel figures from experiment results. Use it when preparing data-driven visuals for a research paper.
CX Codex +1
624installs
semantic-scholar skill Finds journal and conference papers through the Semantic Scholar API: venue metadata, citation counts and a one-line summary.
CX Codex +1
614installs
research-lit skill Searches for papers on a topic, finds related work and summarizes the key ideas. Useful when you need a literature review without digging through arXiv by hand.
CX Codex +1
614installs
autonomous-investigation skill Sets the rules for research skills that run while you are away: question budget, a search plan, and Fact/Inference/Assumption labels on every claim.
CX Codex +1
1,200installs
paper2code skill This skill turns an arxiv paper into a minimal, citation-anchored Python implementation. Use it when you want the paper’s stated method without invented details.
CX Codex +1
738installs
idea-discovery skill Automates an end-to-end research idea pipeline from literature survey to novelty check and experiment planning. Handy for scoping new research directions from scratch.
CX Codex +1
580installs
idea-creator skill Generates, validates, and ranks research ideas from a broad direction. Use it when you need candidate topics to investigate further.
CX Codex +1
580installs
arxiv skill Searches arXiv, downloads PDFs into a local folder and writes a short summary. Handy when you need literature on a topic without leaving the chat.
CX Codex +1
570installs
auto-review-loop skill Runs an autonomous multi-round research review loop. It applies fixes and queries an external reviewer until reaching the target score or round limit.
CX Codex +1
566installs
research-review skill Sends your work to an external reviewer — Claude, Gemini, Claude or Claude — for a critical read. Useful when you want outside eyes on ideas, a paper or experiment results.
CX Codex +1
561installs
paper-writing skill Automates scientific paper writing from a narrative report to a compiled LaTeX PDF. Chains five sub-skills through two review and improvement rounds.
CX Codex +1
561installs
grant-proposal skill Turns research ideas and literature into a structured grant proposal: aims, budget justification, timeline, agency-specific formatting.
CX Codex +1
560installs
research-pipeline skill Runs an end-to-end research workflow from hypothesis generation and experiments to writing a paper PDF. Best for fully automated academic cycles in Claude Code.
CX Codex +1
555installs
paper-audit skill A reviewer-style skill for checking academic papers before submission, with blocker triage and revision plans for .tex, .typ, and .pdf.
CX Codex +1
3,400installs
novelty-check skill Checks proposed research ideas against preprints and conference proceedings like NeurIPS and ICML before you start building.
CX Codex +1
556installs
analyze-results skill This skill reads JSON and CSV experiment outputs, builds comparison tables and runs the statistics. Useful when you have many runs and need to know what they actually show.
CX Codex +1
547installs
intel-discipline-advisor skill This skill routes a market or competitor question to suitable intelligence disciplines, a watch cadence, and the next research skill to run.
CX Codex +1
1,100installs
intelligence-collection-disciplines skill A skill that splits market and competitor research into eight collection channels, then fuses the results. Three weak but independent signals beat one loud claim.
CX Codex +1
1,100installs
auto-paper-improvement-loop skill Runs a compiled paper through review, fixes and recompile twice in a row, with no one watching.
CX Codex +1
540installs
paper-write skill This skill drafts a LaTeX paper section by section from an outline. Useful when the plan is ready and you need the actual prose.
CX Codex +1
539installs
formula-derivation skill Structures research notes and equations into a derivation package. Helps organize assumptions and records proof steps in DERIVATION_PACKAGE.md.
CX Codex +1
532installs
research-refine skill Turns a vague research topic into an implementation-ready method plan through iterative reviewer rounds via Codex MCP, saving checkpoints to disk.
CX Codex +1
531installs
paper-illustration skill Generates publication-quality illustrations and architecture diagrams for papers using Gemini under strict Claude review.
CX Codex +1
527installs
paper-plan skill Turns review conclusions and experiment results into a section-by-section paper outline. Use it before you start writing the draft.
CX Codex +1
526installs
paper-slides skill Turns compiled research papers into conference presentation decks with Beamer LaTeX, editable PPTX slides, and full speaker notes.
CX Codex +1
520installs
monitor-experiment skill This skill checks running experiments, gathers logs and JSON results, and compares metrics. Use it when a job may still be running or needs a status check.
CX Codex +1
518installs
proof-writer skill Drafts mathematically rigorous proofs for ML and AI theory. It tests claims, exposes gaps, and writes structured proof packages to PROOF_PACKAGE.md.
CX Codex +1
515installs
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