120 tagged zotero, measured the same way as everything else here.
Browse within: zotero-plugin 74academic-research 16citations 11evidence-synthesis 11research-integrity 11research-methods 11llm-tools 9pptx 9Literature 8agent-skill 7claude-skill 7literature-review 7annotations 6filter 6
Skill Claude CodeCodex
Read and write a Zotero library from the shell with the zotero-cli command - search papers by keyword or meaning, read PDF full text and page ranges, get and set metadata, manage collections, tags, notes and annotations, add items by DOI/URL/ISBN, and export bibliographies. Use whenever the user asks about their…
papersgpt/papersgpt-for-zotero
Skill Claude CodeCodex
A privacy-first, local-first search assistant and MCP server for your Zotero library, enabling AI agents to search and analyze your research papers securely.
Skill Claude CodeCodex
Generate a high-quality deep-reading note for a single paper and write it into an Obsidian-style vault. Use when the user gives a paper title, DOI, URL, arXiv ID, Zotero item, or local PDF and wants a polished Markdown note with strong structure, evidence-based analysis, and figure placeholders.
Skill Claude CodeCodex
Use when building reusable Obsidian glossary notes from an existing paper source manifest, optionally with a raw-sections override, especially when a reader needs a reviewed shortlist before glossary notes and article links are changed.
Skill Claude CodeCodex
Read an academic paper end to end and extract professional research insights, figures, metadata, and critique. Use this skill whenever the user shares a scientific paper, review paper, survey paper, systematic review, meta-analysis, scoping review, arXiv link, DOI, PDF, or pasted paper text and asks to read…
Skill Claude CodeCodex
Extracts figures and sub-figures from academic PDF papers. Supports Fig/Figure, Scheme, Chart, Supplementary Figure, Extended Data Figure (Nature), and Chinese equivalents (图/方案/示意图/附图/补充图). Sub-figure label recognition supports (a)/(A)/a)/(i)/(1)/a. formats. High-quality PNG output at configurable DPI. Use when user…
Skill Claude CodeCodex
Two-stage academic paper polishing skill. Stage A reduces AI detection traces (targeting GPTZero, Turnitin, Originality.ai). Stage B performs 8-dimension quality improvement (grammar, tone, coherence, conciseness, terminology, structure, argument clarity, journal compliance). Use whenever the user asks to polish…
Skill Claude CodeCodex
Compact the current conversation into a handoff document for another agent to pick up.
Skill Claude CodeCodex
Use this skill when working with Brain Imaging Data Structure (BIDS) datasets: organizing neuroscience and biomedical data (MRI, EEG, MEG, iEEG, PET, microscopy, NIRS, motion capture, EMG, MR spectroscopy, behavioral), querying BIDS layouts, validating compliance, converting DICOM to BIDS, writing metadata sidecars…
Skill Claude CodeCodex
Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST/BLAT, viral sequence downloads, AlphaFold structures, enrichment analysis, OpenTargets, COSMIC, CELLxGENE, and 8cube mouse specificity/expression data. Best for interactive exploration and simple queries. For batch…
Skill Claude CodeCodex
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.
jxtse/scientific-research-skills
Skill Claude CodeCodex
Generates publication-quality academic figures (framework diagrams, pipeline illustrations, system architectures, method overviews) from a paper's method text and a target caption, using a local PaperBanana multi-agent pipeline (Retriever → Planner → Stylist → Visualizer → Critic).
jxtse/scientific-research-skills
Skill Claude CodeCodex
Searches and discovers academic papers across multiple sources (Semantic Scholar, arXiv, Tavily, Exa, Gemini deep research, AMiner, Google Scholar) with adaptive engine selection based on query type. Returns ranked, deduplicated results with metadata (authors, venue, year, citations, abstract, PDF link). Use when the…
jxtse/scientific-research-skills
Skill Claude CodeCodex
Batch download academic paper full-text (PDF/XML) from a list of DOIs. Handles 25 DOI prefixes across 19 publisher families via three layered routes: (1) publisher TDM APIs requiring institutional subscription (Elsevier ScienceDirect, Wiley Online, Springer Nature), (2) Open Access sources (Crossref, Unpaywall…
Skill Claude CodeCodex
Develop a new Weavero feature end-to-end. Use when the user requests a new feature or capability. Asks structured intake questions, produces a plan for approval, then implements, verifies, and reports autonomously.
Skill Claude CodeCodex
Cut and publish a Weavero release. Use ONLY when the user explicitly approves a release ("start the release", "ok to release"). Runs the full gate battery, squashes the dev line, tags, publishes, and hand-edits the notes.
Skill Claude CodeCodex
The Weavero build-install-verify cycle. Use after any src/ change to get the new code running and proven in the live Zotero. Also the reference for version bumping and test-suite etiquette.
Skill Claude CodeCodex
How to read and work with academic paper folders exported by ZoFiles. Each paper folder (named like {arxivId} - {title}) contains structured files: paper.md (full text), paper.bib (citation), kimi.md (AI review), arxiv.id, notes/, and paper.pdf. Use this skill whenever the user asks you to read a paper, summarize a…
Skill Claude CodeCodex
Import arXiv papers into Zotero with duplicate detection and batch support. TRIGGER when: user asks to import papers, add arxiv papers to zotero, batch import papers, check for duplicate papers in zotero, mentions importing by arXiv ID, or wants to list Zotero collections. DO NOT TRIGGER when: user is working on…
Skill Claude CodeCodex
Use when the user wants to add, create, upload/attach, download/fetch, search, tag, look up by item key, export BibTeX for, or organize references (papers, PDFs) in their Zotero library via the zotkit CLI — headless Zotero management through the Web API + WebDAV, no desktop app. Covers task recipes and safety rules.…
Skill Claude CodeCodex
Process PDF papers supplied as files, folders, or path lists; recursively discover folder contents, extract text and optional images, summarize every paper into structured JSON, then export Markdown, Excel, HTML, or all outputs. Use for batch PDF-paper summaries, including papers stored in different folders.
Skill Claude CodeCodex
Use when the user wants to search, script, or automate a Zotero library — even if they don't say "Zotero" or "BibTeX": local-first library search, CI-gateable health reports, preview-first writes with undo, reviewable PDF/DOI import, annotation export, Obsidian/Logseq vault sync, plus an MCP server for agents. Trigger…
Skill Claude CodeCodex
Reference for Zotero's JavaScript API — items, attachments, relations, sync, HTTP, database, notifier, pane, libraries, and utilities. Use when implementing plugin features that access or manipulate Zotero data, respond to library events, or make network requests. Many of these APIs are undocumented or hard to find.
Skill Claude CodeCodex
Scaffold, structure, build, and load a Zotero 7+ plugin using zotero-plugin-scaffold. Use when creating a new Zotero plugin, setting up the build toolchain, understanding the plugin lifecycle, or loading a plugin into a running Zotero instance for development.