Research Toolkit

Plugin research-toolkit in ToddModica/upstream-skills. Commands read from the repo's manifest — today.

Skills (27)

• academic-paper-reviewer

  Multi-perspective academic paper review with dynamic reviewer personas. Runs a 5-seat, role-separated review panel (Journal-Fit Reviewer + 3 peer-review roles + Devil's Advocate) with field-specific expertise; role separation is not a claim of independent error processes. Supports full review, re-re

• academic-paper

  12-agent academic paper writing pipeline. 11 modes (full/plan/outline/revision/revision-coach/abstract/lit-review/format-convert/citation-check/disclosure/rebuttal-audit). 6 paper types, 5 citation formats, bilingual abstracts, LaTeX/DOCX-via-Pandoc/PDF output. Style Calibration + Writing Quality Ch

• academic-pipeline

  Orchestrator for the full academic research pipeline: research -> write -> integrity check -> review -> revise -> re-review -> re-revise -> final integrity check -> finalize. Coordinates deep-research, academic-paper, and academic-paper-reviewer into a seamless 10-stage workflow with mandatory, cove

• academic-research-suite

  ARS-Codex research, writing, manuscript review, study screening, and experiments. Use for deep research, literature or systematic reviews, meta-analysis, research questions, drafts, revisions, roadmaps, abstracts, citations, integrity checks, peer review, research-to-paper. Screen records: sr-screen

• deep-research

  Universal deep research agent team. 13-agent pipeline for rigorous academic research on any topic. 8 modes: full research, quick brief, paper review, lit-review, fact-check, three-way literature scan, Socratic guided research dialogue, and systematic review with optional meta-analysis. Covers resear

• nature-academic-search

  Search literature across sources, verify or manage citations, and build MeSH strategies or citation-impact audits. Use for 文献检索、引文核对、参考文献管理、严格他引 and evidence-backed citer profiles; not for translating a paper or drafting manuscript prose.

• nature-citation

  Find and verify Nature/CNS-family literature supporting manuscript claims, with claim-to-source mapping and reference-manager export. Use for Nature系列引用、CNS支撑文献、分段补引用 when this journal scope is requested; use broader literature search for unrestricted sources.

• nature-data

  Draft or audit manuscript Data/Code Availability statements, dataset access routes, repository plans, and FAIR metadata. Use for 数据可用性声明、数据共享、数据仓库选择 and dataset citations; not general data cleaning or statistical analysis.

• nature-figure

  Create, revise, audit, and export manuscript scientific figures in Python or R. Use for 论文配图、科研绘图、多面板图 and submission-ready plots, or explicitly requested AI-generated graphical abstracts and mechanism schematics. Not for interactive dashboards, data cleaning, or statistics-only analysis.

• nature-paper2ppt

  Create or improve a Chinese academic PPTX from a scientific paper or research reading notes, with source figures and speaker notes. Use for 论文做PPT、文献汇报、组会PPT and paper-based conference or defense presentations.

• nature-polishing

  Polish, translate, or tighten existing academic prose while preserving facts, terminology, and evidence boundaries. Use for 论文润色、学术翻译、正文精简, or manuscript LaTeX layout fixes. Use nature-writing when the main task is drafting new sections or rebuilding the manuscript argument.

• nature-reader

  Create source-grounded Chinese-English paper readers with aligned text, figures, tables, and equations. Use for 全文翻译、中英文对照、论文精读 or source-linked questions about a paper; respect a requested excerpt or question without generating a full reader.

• nature-response

  Draft, audit, or revise responses to peer review, revision cover letters, and marked-manuscript or LaTeX revision packages. Use for 审稿意见回复、逐点回复、返修信、 rebuttals and edits to existing response drafts. Initial-submission materials belong to nature-writing; simulated peer review belongs to nature-reviewe

• nature-writing

  Draft or restructure scientific manuscript arguments, sections, and initial-submission materials from author-provided evidence. Use for 论文写作、章节起草、论证重构、正文压缩、首次投稿材料. Use nature-polishing for language-only edits to existing prose and nature-response for post-decision correspondence.

• patent-disclosure-skill

  中国专利技能：挖掘专利点并撰写发明/实用新型/外观设计交底书；将已有交底改写为申请文件四件套；规划发明母案与分案并核对原始披露；依据发明人材料衔接交底与申请；按著录项目检索公布公告，点名海外时检索美欧日韩等海外专利；解读中国及海外专利文献；基于已入库解读生成专利地图；对照审查政策撰写简报；辅助审查意见答复；编制权利要求对照表底稿（不构成法律意见）。| China patents: mine patent points and draft invention/utility-model/design disclosures; convert an existing disclosure into

• patent-application

  申请文件：把已有交底写成权利要求书、说明书、摘要与说明书附图；规划发明母案与分案并核对原始披露。四件套须指定交底目录。内容争议写入问题清单，交付后请确认须摘要清单。已有产出上改稿则另存新时间戳目录。须显式触发。

• patent-chart

  权利要求对照表：独权拆成技术特征，逐格比对对比文件/产品/标准，附证据与强弱。用于无效对照、FTO 初筛、侵权/EoU、SEP、可专利性底稿。须点名。不出法律意见。

• patent-disclosure

  中国专利交底书：发明/实用新型/外观设计的专利点挖掘、轻量查新与成文、保护型1+N专利布局。

• patent-docket

  按发明人/工程师给的材料一趟写出交底书和申请文件；申请问题清单上的缺口最多改三轮。缺技术事实就问人，不编。触发：交底申请一起做、从零出交底和申请、一条龙、帮写交底再出申请、按清单改、会稿、案卷、/patent-docket。

• patent-exam-policy

  给交底用的政策简报：对照国知局近期口径，说明对交底写法/本稿的影响，并提示申请书式。技能进化仅为旁路，默认只改交底包，须另点名才改文件。

• patent-map

  专利地图：基于通俗解读已入库的 Obsidian 案例，点名后打开五种图。地形按 bge-small-zh 向量摊开。

• patent-oa

  审查答复辅助：审查意见问答与草稿；库薄时引导案例入库。须显式触发。

• patent-reader

  专利通俗解读：中国或海外（美欧日韩等）公开号 / PDF 成通俗笔记、图谱与 Obsidian 入库。

• patent-search

  专利著录检索：中国专利公布公告（发明人、申请人、分类号、名称、摘要；也可从单图或权利要求生成名称/摘要关键字后查询）；用户点名海外时，用 Google Patents 检索美欧日韩等海外专利。

• scipilot-cite-skill

  SciPilot Skills 家族的文献检索与引用插入技能。支持两种输入模式—— 模式 A：读取用户的 Word(.docx) 或 LaTeX(.tex) 论文，在正文对应章节插入引用； 模式 B：接收用户给出的一段话/一个观点/一个论断，输出能支撑它的参考文献列表 （不修改文档）。两种模式都通过 Semantic Scholar、OpenAlex、Crossref 三源 并行检索真实文献，DOI + 多源交叉验证真实性，然后按用户指定格式（IEEE/APA/ Nature/Vancouver/GB-T-7714 等）输出。每次交付前都强制运行 Gate 8 末端幻觉 门控审计，FAIL 即

• scipilot-figure-skill

  SciPilot Skills 家族成员，负责科研数据可视化——但定位不是"画图工具"， 而是"可视化顾问"。先做数据剖析（列类型/样本量/分布/异常值/分组结构/相关性）， 再结合用户的论证目标推荐图型，主动拦截科研画图的经典错误（小样本画均值柱掩盖 分布、双 Y 轴、饼图、Y 轴不当截断、rainbow 色图、把分类点连成折线等），最后 产出 Nature / Science / IEEE / Elsevier / PNAS / 中文核心期刊级别的成图。 覆盖纯数据图：折线、柱状、散点、箱线 / 小提琴、热力图、误差棒、分布图（直方 图 / KDE）、相关性矩阵 / 散点矩阵、多面板组合。

• scipilot-writing-skill

  SciPilot Skills 家族的学术论文写作与润色技能，定位是把"顶刊编辑 + 严苛审稿人" 装进你的写作流程。覆盖全链路写作任务：中英互译润色、缩写/扩写、英文/中文表达润色、 逻辑检查、去 AI 味（humanize）、逐章节起草（Title/Abstract/Introduction-CARS/ Methods/Results/Discussion/Conclusion/Limitations）、图/表标题生成、实验结果分析、 审稿人视角自检、cover letter（投稿信）、response-to-reviewers（rebuttal 审稿回复）。 与同类"prompt 清单"

MCP servers (1)

• itasca-mcp

  runs: uvx itasca-mcp

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