185 tagged research tools, measured the same way as everything else here.
Browse within: academic-research 97bioinformatics 57data-science 57prompt-engineering 57research-assistant 27codex-skills 22Workflow Automation 20academic-writing 14literature-review 8duckduckgo 7jina 7search 7llm-agents 5reproducible-research 5
lishix520/academic-paper-skills
Skill Claude CodeCodex
Systematic writing framework for philosophy and interdisciplinary academic papers from optimized outline to submission-ready manuscript. Use when users want to: (1) write a paper from a detailed outline, (2) ensure quality control during writing, (3) maintain consistency across chapters, (4) prepare a submission-ready…
lishix520/academic-paper-skills
Skill Claude CodeCodex
Systematic strategic planning framework for philosophy and interdisciplinary academic papers targeting preprint platforms (PhilArchive, arXiv, PhilSci-Archive). Use when users want to: (1) plan a paper on a specific topic, (2) identify research gaps and assess originality, (3) develop optimized paper outlines, (4)…
Skill Claude CodeCodex
Sync and manage Overleaf LaTeX projects from the command line. Pull projects locally, push changes back, compile PDFs, and download compile outputs like .bbl files for arXiv submissions. Use when working with LaTeX, Overleaf, academic papers, or arXiv.
lin1111-1/academic-integrity-rewrite
Skill Claude CodeCodex
Revise Chinese or English academic writing for lower unnecessary textual overlap while preserving meaning, evidence, numbers, equations, terminology, and citations. Use for 学术论文降重、查重后修改、重复段落重写、paraphrasing, similarity-report remediation, abstracts, literature reviews, methods, results, discussions, theses, and…
Skill Claude CodeCodex
Use this skill when the task is to review an academic paper PDF from the repo input folder, run specialized auditors, and compile a final report.
AlterLab-IEU/AlterLab-Academic-Skills
Skill Claude CodeCodex
Build and analyze genome-scale constraint-based metabolic models with COBRApy — flux balance analysis (FBA), flux variability analysis (FVA), gene and reaction knockouts, flux sampling, and SBML model I/O. Use when simulating metabolic networks, predicting growth or knockout phenotypes, or running systems-biology and…
AlterLab-IEU/AlterLab-Academic-Skills
Skill Claude CodeCodex
Process and visualize deep-sequencing coverage with the deepTools CLI — convert BAM to bigWig (bamCoverage), build log2 ratio tracks (bamCompare), run QC (multiBamSummary correlation, PCA, plotFingerprint), apply the ATAC-seq Tn5 shift (alignmentSieve --ATACshift), and make TSS/peak heatmaps and profiles…
AlterLab-IEU/AlterLab-Academic-Skills
Skill Claude CodeCodex
Develops, tests, and deploys clinical machine learning models with the PyHealth healthcare AI toolkit. Use when working with electronic health records (EHR), clinical prediction tasks (mortality, readmission, drug recommendation), medical coding systems (ICD, NDC, ATC), physiological signals (EEG, ECG), healthcare…
Skill Claude CodeCodex
Use when the user wants to search TR Dizin (trdizin.gov.tr — TÜBİTAK ULAKBİM national academic index) for publications, journals, authors, or institutions; do field-scoped advanced search (title/author/abstract/journal/doi/year/…); apply facet filters (access type, year, language, subject, document type); read a…
Skill Claude CodeCodex
../../../SKILL.md.
Linwei-Chen/paper-deep-reader-skill
Skill Claude CodeCodex
A guided method for reading one research paper and writing a detailed teaching report about it. It explains the subject from the basics through the paper's methods, formulas, evidence, and limits.
Skill Claude CodeCodex
Scaffold a new knowledge engine workspace OR link to an existing shared knowledge base. Use when starting a new knowledge base or connecting a project to an existing one.
Skill Claude CodeCodex
Sharpen a vague idea, a literature gap, or a stalled project into a GOOD research question — consequential, specific, falsifiable, feasible — BEFORE committing to a technical route. Produces a structured Question Card, then optionally hands off to /kw-explore to form the technical route. Triggers: "is this a good…
Skill Claude CodeCodex
Single entry for the knowledge engine. Detects state and offers choices — fetch papers by id/DOI/title, absorb all new papers (L1→L2), run L3 synthesis. Use when the user says "process the knowledge base", "/kw", "fetch this paper", or drops new papers.
Skill Claude CodeCodex
Use when Experiment must build, run, compare, or record reproducible ML/AI paper experiments locally or through the Research Assistant-configured ssh-bash tool and verified SSHFS workspace, including baselines, datasets, controlled trials, multi-seed formal evidence, ablations, and results promotion. Examples: user…
Skill Claude CodeCodex
Use when Writing must assess, draft, revise, or audit an empirical ML/AI method paper whose claims depend on experiment-record.md and results/, including baseline fairness, multi-seed reporting, ablations, formula-rich methods, result tables, citation verification, and derived submission artifacts. Do not use its…
Skill Claude CodeCodex
Use when the Research Assistant must classify and orchestrate a multi-stage paper request, continue an existing project from exact-cwd artifacts, choose between survey, empirical, or hybrid routes, acceptance-review specialist handoffs, or decide whether missing authority, access, evidence, cost, or safety requires a…
Skill Claude CodeCodex
Simulate a multi-reviewer academic paper review process and produce actionable revision plans. Use this skill whenever the user wants feedback on an academic paper, research manuscript, conference submission, or draft — especially for venues like NeurIPS, ACL, ICML, EMNLP, ICLR, AAAI, or any CS conference/journal.…
Skill Claude CodeCodex
Improve academic writing using a comprehensive guide of writing principles. Use this skill when the user asks to improve, rewrite, polish, or check their writing — at any granularity (sentence, paragraph, section, or full paper). Trigger on phrases like "improve my writing", "rewrite this section", "apply writing…
Skill Claude CodeCodex
Create editable charts, diagrams, figures, posters, or slides from intent, data, or references.
Skill Claude CodeCodex
Use when [trigger symptoms, user intents, task contexts]. Include Chinese trigger phrases when useful. Do not summarize workflow here.
Skill Claude CodeCodex
Audit a full article for factual accuracy, missing counter-voices, numerical context, and promotional or one-sided framing. Use when a user shares an article or URL and asks whether it is accurate, credible, balanced, or PR.
Skill Claude CodeCodex
Fact-check a specific, verifiable claim by seeking supporting and contradicting evidence, weighing source quality, and issuing a calibrated verdict with citations.
Skill Claude CodeCodex
Analyze countries, regions, conflicts, policies, alliances, geoeconomics, geopolitical claims, and supplied articles. Use for current assessments, narrative audits, actor and interest analysis, scenarios, and risk indicators that need sourced judgments, calibrated confidence, and explicit uncertainty.