Submission-grade Nature/high-impact journal figure workflow for Python or R. Use whenever the user asks to create, revise, audit, or polish manuscript figures, multi-panel scientific plots, figures4papers-style matplotlib plots, or journal-ready SVG/PDF/TIFF outputs, especially for Nature-family or other high-impact journals. Before plotting, define the figure's conclusion, evidence logic, export needs, and review risks. If the user has not chosen Python or R, ask "Python or R?" and stop. Use only the selected backend for figure generation, previewing, exporting, and QA. Supports matplotlib/seaborn and ggplot2/patchwork/ComplexHeatmap. Not for dashboards or Illustrator/Figma-first infographics. Also trigger on general academic-writing figure needs even without the word "Nature", such as making figures/plots for a paper, scientific/academic plotting, data visualization for a manuscript, and Chinese phrasings like 论文配图、学术写作配图、科研绘图、科研作图、画图、作图、出图、论文图表、可视化.
Polish, restructure, or translate academic prose into Nature-leaning English using writing-strategy principles, curated Nature/Nature Communications article patterns, and phrase-level support from Academic Phrasebank. Use whenever the user asks to polish a manuscript paragraph, abstract, introduction, results, discussion, conclusion, title, methods section, or Chinese academic draft for publication-quality English. Also covers LaTeX layout/typesetting (排版) fixes — loose or sparse pages, stranded section headings, figures that don't fill the page or split across pages, "Float too large", multi-panel figure arrangement, and Supplementary Information that looks empty — via references/latex-layout.md. Also trigger on general academic/scientific writing requests even without the word "Nature", including academic writing, scientific writing, SCI/paper writing, English manuscript polishing, language editing, proofreading, and Chinese phrasings such as 学术写作、科研写作、论文润色、写paper、SCI写作、英文论文润色、语言润色、润色、改写、学术英语、英文写作.
Draft, restructure, or plan Nature-style manuscript sections from author-provided claims, results, figures, notes, or Chinese drafts. Use when the user wants to write or rebuild an abstract, introduction, related-work, method, experiments, discussion, conclusion, title, or full manuscript argument rather than only polish finished prose. Also trigger on general academic-writing requests even without the word "Nature", such as writing a paper from scratch, drafting a manuscript/section, structuring a paper, and Chinese phrasings like 学术写作、科研写作、论文写作、写论文、写paper、SCI写作、帮我写论文、搭论文框架、起草论文、写引言/摘要/讨论.
Access AlphaFold 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology.
arXiv preprint server — keyword search the official API and download papers as PDF / HTML / source tarball. Use whenever the user mentions an arXiv ID (e.g. 2106.04559) or wants preprints on a topic in CS / physics / math / quantitative biology. For biomedical preprints specifically, prefer biorxiv skill.
bioRxiv & medRxiv — biology / medicine preprint servers. Search by keyword + date window, fetch a specific preprint's full metadata (with all version history + abstract + JATS XML link) by DOI. Use for cutting-edge biology/medicine work that hasn't gone through peer review yet, or to find the original preprint version of a paper you only have the DOI for.
Multiple sequence alignment of proteins via EBI Clustal Omega web service. Use when you have ≥2 protein sequences in a FASTA file (≤4000 sequences, ≤4 MB) and need an alignment to assess conservation, residue importance, or domain structure. Do NOT use for: single sequences, homology search (use protein_sequence_similarity_search), structural alignment (use foldseek), or DNA/RNA alignment.
NCBI E-utilities for biological sequences — fetch protein/nucleotide FASTA by accession, run BLAST, translate CDS to protein, search NCBI Protein by gene+organism. Use when the user provides an NCBI accession (NP_, XP_, NM_, NR_, etc.), asks for a sequence by gene name + species, or needs to translate a coding sequence. Don't use for ClinVar variants (use ncbi_clinvar) or gene metadata lookup (use ncbi_gene).