zimoliao/scholaraio
47 skills
$npx skills add zimoliao/scholaraioSkillInstalls
academic-writingUse when the user needs help choosing or organizing an academic-writing workflow by deliverable, stage, or format, including review articles, guided reading,…arxivUse when the user wants to browse arXiv preprints, search arXiv directly, fetch a PDF by arXiv ID or URL, or send a preprint into the ScholarAIO ingest…auditUse when the user wants to check paper-library data quality, diagnose missing metadata, filename issues, DOI duplicates, title mismatches, or repairable…backupUse when the user wants to back up ScholarAIO data through configured rsync targets, inspect backup plans, or run a dry-run backup before syncing.bioinformaticsUse when working on bioinformatics workflows such as alignment, variant calling, phylogenetics, or protein-structure analysis, especially across BLAST,…citation-checkUse when the user wants to verify citations in AI-generated or human-written text against the local knowledge base and catch hallucinated, wrong, or missing…citationsUse when the user asks about highly cited papers, citation rankings, or updating citation counts from external APIs.documentUse when the user wants to create or inspect DOCX, PPTX, or XLSX files, generate a downloadable Office deliverable, or verify its structure and layout warnings…drawUse when the user wants diagrams, flowcharts, architecture visuals, data relationships, timelines, concept maps, Mermaid, Graphviz, drawio, or polished paper…enrichUse when the user wants LLM-based metadata enrichment, table-of-contents extraction, L3 conclusion extraction, or abstract backfilling for library papers.exploreUse when the user wants to survey a journal or field, fetch papers from OpenAlex, cluster topics, build exploration embeddings, or search named explore…exportUse when the user needs BibTeX, RIS, Markdown reference lists, filtered citation exports, custom citation styles, or a Markdown-to-DOCX export for sharing.graphUse when the user asks about citation relationships, references, citing papers, shared references, bibliographic overlap, or graph-style paper connections.gromacsUse when working on biomolecular molecular dynamics with GROMACS, including system setup, equilibration, production runs, trajectory analysis, or MM/PBSA-style…importUse when the user wants to import papers from Endnote XML/RIS, Zotero Web API or local SQLite, attach PDFs, match PDFs to records, or supplement records with…indexUse when the user wants to rebuild or refresh ScholarAIO keyword, full-text, FTS5, FAISS, or semantic search indexes after data or metadata changes.ingestUse when the user wants to process new papers, patents, theses, documents, or proceedings from inbox queues into the knowledge base, run the ingest pipeline,…ingest-linkUse when the user wants to ingest web URLs, online PDFs, rendered web pages, standards, manuals, or articles through qt-web-extractor into the normal…insightsUse when the user wants to analyze research behavior, search hot keywords, most-read papers, reading trends, active workspaces, or unread semantic neighbors.lammpsUse when working on classical materials simulations with LAMMPS, including potential selection, shock or deformation setups, thermodynamic runs, or structure…literature-reviewUse when the user wants to draft a literature review, survey a research area, summarize a field, organize workspace papers, identify gaps, or export review…metricsUse when the user asks about LLM token usage, API call timing, runtime metrics, cost signals, or performance statistics.nature-workflowUse when the user explicitly asks for Nature Skills, nature-skills, Nature style, Nature-style, Nature Communications, Nature-family, CNS, high-impact journal,…openfoamUse when working on CFD cases with OpenFOAM, including solver selection, dictionary setup, mesh workflows, turbulence models, or flow and heat-transfer…paper-guided-readingUse when the user wants guided reading, deep reading, or structured analysis of a single paper, starting from fuzzy keywords or a research question.paper-writingUse when the user wants help drafting or revising a research paper section, including Introduction, Related Work, Method, Results, Discussion, or Conclusion.paper2anyUse when the user explicitly requests Paper2Any or a Paper2Any benchmark for paper-to-figure, PPT, poster, video, DrawIO, PDF-to-PPT, or related workflows…patent-fetchUse when the user has a patent publication number, patent URL, or patent-search result and wants the PDF fetched into the configured patent inbox.patent-searchUse when the user wants USPTO patent discovery, patent metadata lookup, application lookup, or downloadable patent candidates before ingest.posterUse when the user needs an academic poster, conference poster, poster-style visual summary, section planning, figure-text balance, or poster packaging workflow.publishUse when the user says a paper, review, report, or LaTeX deliverable is final and wants it archived under published/ or exposed through the static…quantum-espressoUse when working on first-principles materials calculations with Quantum ESPRESSO, including SCF, band structures, DOS, phonons, electron-phonon coupling,…renameUse when the user wants to normalize paper directory names to Author-Year-Title format after metadata correction or audit cleanup.research-gapUse when the user wants to identify research gaps, open questions, unexplored areas, cross-paper limitations, or future directions from workspace literature.review-responseUse when the user receives peer review comments and wants a rebuttal, response letter, point-by-point reply, or evidence-backed revision response.scientific-runtimeUse when serving scientific CLI tasks through ScholarAIO, especially when the agent should prefer scholaraio toolref, handle partial coverage safely, or avoid…scientific-tool-onboardingUse when evaluating, adding, or upgrading ScholarAIO support for a scientific computing tool, especially integration-gate review, official docs ingestion,…scrubUse when incrementally reviewing and repairing low-quality metadata after enrich, especially non-standard documents that need title, author, or year correction…searchUse when the user wants to find academic papers, search the local library, run keyword or semantic search, search by author, explore topics, or federate across…setupUse when the user wants to install, configure, diagnose, or troubleshoot ScholarAIO, including setup check, dependency status, API keys, and bilingual setup…showUse when the user wants to read a paper or inspect metadata, abstract, conclusion, full text, figures, or detail levels L1 through L4.technical-reportUse when the user wants a technical report, topic report, research briefing, structured investigation, evidence synthesis, recommendations, or final report…topicsUse when the user asks about research themes, topic distribution, BERTopic clustering, topic overview, topic papers, topic merges, or HTML topic visualizations.translateUse when the user wants to translate paper markdown, full papers, or batches into another language while preserving formulas, code blocks, and images.webextractUse when a URL or online PDF needs ingestion-ready rendered content, or when host-native URL reading failed because JavaScript/PDF rendering is required; only…workspaceUse when the user wants to organize paper subsets, create workspaces, add or remove papers, search within a workspace, manage refs/papers.json, or export…writing-polishUse when the user wants to polish academic prose, remove AI-generated patterns, improve clarity, or adapt English or Chinese writing to a target style or…