Molecular Visualization 3dmol
jaechang-hits/SciAgent-Skills
3Dmol.js WebGL molecular visualization emitted as self-contained HTML.
把一个化学反应做成自包含的微观 3D 交互演示网页:左/上为 Three.js 可交互分子动画 (拖滑块看断键·成键·原子重组,分步高亮),右为 KaTeX 反应方程 + 分步讲解 + 原子守恒计数 + 可选能量-反应进程曲线。支持三入口——给定文字反应/方程、随机出题、上传图片识别后演示。
$ npx skills add wy51ai/edulab --skill edu-chem-reaction -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install wy51ai/edulab edu-chem-reaction --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/wy51ai/edulab.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/edu-chem-reaction .claude/skills/edu-chem-reaction && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "edu-chem-reaction" agent skill from https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reaction into .claude/skills/edu-chem-reaction/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "edu-chem-reaction", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reactionType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add wy51ai/edulab --skill edu-chem-reaction -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install wy51ai/edulab edu-chem-reaction --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wy51ai/edulab.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/edu-chem-reaction .agents/skills/edu-chem-reaction && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "edu-chem-reaction" agent skill from https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reaction into .agents/skills/edu-chem-reaction/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "edu-chem-reaction", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add wy51ai/edulab --skill edu-chem-reaction -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install wy51ai/edulab edu-chem-reaction --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wy51ai/edulab.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/edu-chem-reaction .cursor/skills/edu-chem-reaction && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "edu-chem-reaction" agent skill from https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reaction into .cursor/skills/edu-chem-reaction/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "edu-chem-reaction", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/wy51ai/edulab.git --path skills/edu-chem-reaction--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add wy51ai/edulab --skill edu-chem-reaction -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install wy51ai/edulab edu-chem-reaction --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wy51ai/edulab.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/edu-chem-reaction .gemini/skills/edu-chem-reaction && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "edu-chem-reaction" agent skill from https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reaction into .gemini/skills/edu-chem-reaction/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "edu-chem-reaction", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install wy51ai/edulab edu-chem-reactionInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add wy51ai/edulab --skill edu-chem-reaction -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/wy51ai/edulab.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/edu-chem-reaction .github/skills/edu-chem-reaction && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "edu-chem-reaction" agent skill from https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reaction into .github/skills/edu-chem-reaction/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "edu-chem-reaction", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add wy51ai/edulab --skill edu-chem-reaction -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install wy51ai/edulab edu-chem-reaction --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wy51ai/edulab.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/edu-chem-reaction .opencode/skills/edu-chem-reaction && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "edu-chem-reaction" agent skill from https://github.com/wy51ai/edulab/tree/master/skills/edu-chem-reaction into .opencode/skills/edu-chem-reaction/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "edu-chem-reaction", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
edu-chem-reaction把一个化学反应做成自包含的微观 3D 交互演示网页:左/上为 Three.js 可交互分子动画 (拖滑块看断键·成键·原子重组,分步高亮),右为 KaTeX 反应方程 + 分步讲解 + 原子守恒计数 + 可选能量-反应进程曲线。支持三入口——给定文字反应/方程、随机出题、上传图片识别后演示。
Edu Chem Reaction is an agent skill from wy51ai/edulab. 把一个化学反应做成自包含的微观 3D 交互演示网页:左/上为 Three.js 可交互分子动画 (拖滑块看断键·成键·原子重组,分步高亮),右为 KaTeX 反应方程 + 分步讲解 + 原子守恒计数 + 可选能量-反应进程曲线。支持三入口——给定文字反应/方程、随机出题、上传图片识别后演示。 覆盖燃烧、化合/分解/置换/复分解、氧化还原(电子转移可视化)、有机机理(酯化等含催化剂·过渡态)。 统一由 sympy 精确驱动:自动配平方程、校验原子守恒与原子映射、推导键的断/成,答案与几何同源一致。 内置两套引擎并自动选择:morph(原子变形,展示原子守恒)与 mechanism(机理关键帧,展示催化/过渡态)。 混合几何:默认自建 VSEPR 分子库,环境装有 RDKit 则可用其由 SMILES 生成构象(绝不自动安装)。 其他 agent 也可调用本技能生成此类网页。形态与 edu-solid-geometry / edu-analytic-geometry 平行, 但用 Three.js + KaTeX 演示分子反应。 触发词:化学反应, 微观演示, 分子动画, 燃烧, 甲烷燃烧, 氢气燃烧, 电解水, 氧化还原…
Its SKILL.md is about 1.2k tokens, which your agent loads only when the skill is triggered. The skill folder holds 10 other files, including scripts and reference files (for example `lib/molecules.py`, `lib/reaction_kernel.py` and `references/conventions.md`).
It sits in Research & Science, covering Drug discovery and cheminformatics, Math and symbolic computation and 3D graphics and WebGL. It works with SymPy, Three.js, RDKit and Python. The licence is Apache-2.0.
Read from SKILL.md and the folder at commit 6a9c876. It shows what the files ask for, not the result of running them.
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Ships 1 file in scripts/ (Python), which the agent can run.
Shell commands in SKILL.md call:
python3From the folder's file list and the shell code blocks in SKILL.md.
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Edu Chem Reaction loads about 1.2k tokens when it runs, and up to ~3.8k if it reads all its reference files. Until then it costs about 211 tokens; SKILL.md has 234 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); the scripts in this folder are not scanned.
The full file from wy51ai/edulab at commit 6a9c876, republished under its Apache-2.0 licence (© wy51ai). 234 words, ~1,190 tokens.
.claude/skills/edu-chem-reaction/SKILL.md (or your agent's skills folder). This skill also uses 6 other files; get the full folder from GitHub.一个可直接用浏览器打开的单页 HTML:一侧是反应对应的 3D 分子动画(Three.js,可旋转缩放,
拖动“反应进度”滑块逐帧看 化学键断裂/生成、原子重新组合,分步高亮 + 浮动分子标签),
另一侧是 KaTeX 反应方程 + 分步讲解 + 原子守恒计数器,并可选 能量-反应进程曲线、
火焰、催化剂质子、电子转移等叠加层。形态与 template/reaction.html 一致。
计算核心 lib/reaction_kernel.py 依赖 sympy(用于配平)。运行脚本前先确认有一个能 import
sympy 的 python3:跑 python3 -c "import sympy"(本机:/opt/homebrew/bin/python3.11)。
缺库时的处理(重要):若 import 报错(sympy 或后续用到的任何库都同理),先询问用户是否安装,
同意后再装(python3 -m pip install <库名>)或换解释器;不要未经询问直接装。
RDKit 是可选项:装了则混合几何会用它由 SMILES 生成真实构象,没装就用自建 VSEPR 库——
两种都能跑,本技能任何时候都不会自动安装 RDKit。
把反应整理成结构化 spec(格式见 references/problem-schema.md):反应物/产物、原子映射或显式原子、
条件(点燃/通电/催化/可逆)、所属类别、分步讲解、语言。
balanced_coefficients 配平、答案规整再用。输出语言跟随提示词语言:英文提示 → 英文网页,中文 → 中文。spec 里记下
meta.language。
按 references/conventions.md 的建模约定,调用 lib/reaction_kernel.py:
balanced_coefficients(...) 用 sympy 零空间自动配平(方程系数有保证);assemble_data(spec) 展开分子实例、校验原子守恒与原子映射双射、推导键的断/成(差集)、
算出每个原子在反应物态/产物态的世界坐标,产出注入模板的 data。可先命令行自检:
python3 lib/reaction_kernel.py # 配平 + 守恒 + 键差 自检
python3 lib/molecules.py # 分子库自检📍 输出位置(重要):成品 HTML 一律写到用户当前工作目录(
Path.cwd()),除非用户显式指定路径。 绝不要写进技能自身目录(skills/edu-chem-reaction/output/等)——那是技能内部的开发样例目录。
照着 scripts/generate.py 里的 build_* 改即可,再 render_html(K.assemble_data(spec), out):
from pathlib import Path
out = Path.cwd() / "reaction-<反应简述>.html" # 落在用户当前目录
render_html(K.assemble_data(spec), out)范例(直接照抄改):
build_combustion_ch4(甲烷燃烧·morph·火焰·能量)——高层 species + atom_map 的范本;build_redox_na_cl2(钠+氯气·氧化还原·电子转移)——叠加 electrons;build_esterification(酯化·mechanism·催化剂·过渡态)——低层 atoms + fragments + 关键帧 的范本。generate.py 可直接出已注册反应;不传路径默认写到 cwd:
python3 <技能目录>/scripts/generate.py combustion_ch4 ./reaction.html
python3 <技能目录>/scripts/generate.py listassemble_data 内已断言)。⚠️ 必须关闭你开过的端口/服务:预览检查一结束就立即停掉本地服务,绝不留下占用端口的进程。 用 preview 工具开的:检查完马上
preview_stop。交付前确认端口已释放,再告诉用户结果。
成品写在用户当前工作目录(cwd),命名形如 reaction-<反应简述>.html,把路径告诉用户,可直接浏览器打开。
交付前确认:(1) 成品在 cwd、不在技能目录;(2) 没有遗留任何由本次预览开启的本地服务/端口。
模板内置一套统一渲染器、两种逐帧定位(共用键差绘制/标签/叠加层/UI):
assemble_data 据 meta.engine(auto/morph/mechanism)选择:auto 时,类别为 organic
或带 fragments 走 mechanism,否则走 morph。叠加层均为数据开关(见 schema):
flame(燃烧/强放热)、catalyst(催化剂质子+开关)、transitionGlow(过渡态能量光)、
electrons(氧化还原电子转移)、energy(能量-反应进程曲线)、原子守恒计数器(默认开)。
配色:整体为亮色(教科书球棍图风:原子带深色描边 + 柔和投影 + 白底面板),各反应用 meta.accent
区分强调色(燃烧 amber、酯化 indigo、钠氯 violet…)。
generate.py 加一个 build_*(高层 species+atom_map,或低层 atoms+fragments),
注册进 REGISTRY。lib/molecules.py 的 _LIBRARY_BUILDERS 加一项(VSEPR 几何 + 显示元数据 + 内部键)。template/reaction.html 增一个由 data 字段驱动的可选模块。template/reaction.html — 数据驱动模板(统一渲染器 + 双引擎 + 数据岛 __REACTION_DATA__)lib/molecules.py — VSEPR 理想分子几何库(含元素表/配色/半径)lib/reaction_kernel.py — sympy 配平 + 守恒/映射校验 + 键差 + 场景装配 + 可选 RDKit 探测scripts/generate.py — 注入模板 + 范例 build_*(含 REGISTRY 与 CLI)references/problem-schema.md — reaction spec 与 data 的数据格式references/conventions.md — 建模约定、引擎选择、叠加层、配平与自检© wy51ai, Apache-2.0. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
SKILL.md and 6 other files (scripts, references) in skills/edu-chem-reaction of wy51ai/edulab.
Open the folder on GitHubat commit 6a9c876
Edu Chem Reaction next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Edu Chem Reaction this skillwy51ai/edulab | 1.4k | — | ~1.2k | Automated safety check: Pass | Apache-2.0 | |
| Molecular Visualization 3dmoljaechang-hits/SciAgent-Skills | 374 | — | ~3.2k | Automated safety check: Pass | BSD-3-Clause | |
| SympyzLanqing/codex-claude-academic-skills | 4.7k | 15 repos | ~3.4k | Automated safety check: Pass | MIT | |
| DiffDock Molecular DockingK-Dense-AI/scientific-agent-skills | 48k | 1 repos | ~3k | Automated safety check: Notes | MIT | |
| Rowanlamm-mit/scienceclaw | 246 | 4 repos | ~3.1k | Automated safety check: Warn | Proprietary | |
| Coot Rdkitpemsley/coot | 168 | — | ~981 | Automated safety check: Pass | GPL-3.0 |
jaechang-hits/SciAgent-Skills
3Dmol.js WebGL molecular visualization emitted as self-contained HTML.
zLanqing/codex-claude-academic-skills
A skill your agent uses when working with symbolic mathematics in Python.
K-Dense-AI/scientific-agent-skills
Predicts how small molecules bind to a protein with DiffDock, covering batch docking, pose ranking by confidence and checks on the results; not for binding affinity.
lamm-mit/scienceclaw
Cloud-based quantum chemistry platform with Python API. An agent skill from lamm-mit/scienceclaw.
pemsley/coot
RDKit molecular manipulation and visualization within Coot's Python environment.
davila7/claude-code-templates
Guides molecular work with RDKit in Python: reading SMILES and SDF, sanitization, descriptors, fingerprints, substructure and similarity search, reactions and coordinates.
wy51ai/edulab
A skill your agent uses when asked to make an explainer / walkthrough video (讲解视频、解题视频、例题精讲、微课) for a chemistry problem (化学题: 氧化还原配平 双线桥 电子守恒, 物质的量计算, 化学平衡 三段式 平衡常数 转化率 反应速率, 离子反应, 电化学, 溶液 滴定…
wy51ai/edulab
把一道解析几何题解成一个自包含的交互教学网页:左栏题面 + 动态控制台(一个 可变参数滑块驱动实时重算的几何量 + 理论范围/定值指示),中栏 KaTeX 分步解析,右栏 2D Canvas 动态几何画板(椭圆/双曲线/抛物线/圆 + 动直线/动点 + 向量 + 标注 + 画笔涂鸦)。
wy51ai/edulab
A skill your agent uses when asked to make an explainer / walkthrough video (讲解视频、解题视频、例题精讲、微课) for a math problem (数学题, geometry, algebra, functions, motion/行程 problems), from a problem screenshot…
wy51ai/edulab
把一道立体几何题解成一个自包含的交互教学网页:左侧 MathJax 分步解析, 右侧 Three.js 可交互 3D 模型(分步高亮 + 镜头切换)。支持三种入口——给定文字题目、 随机出题、上传题目图片识别后解题。覆盖正方体/长方体、棱锥/棱柱、圆柱/圆锥上的线面角、 二面角、异面直线夹角、点到平面距离、体积等题型,统一用"建系+向量法",并由 sympy 精确 计算驱动(答案、3D…
wy51ai/edulab
A skill your agent uses when asked to make an explainer / walkthrough video (讲解视频、解题视频、例题精讲、微课) for a physics problem (物理题: mechanics/力学 受力分析 牛顿定律 斜面 传送带 板块 平抛 圆周 能量 动量, optics/光学 折射…
Categories
把一个化学反应做成自包含的微观 3D 交互演示网页:左/上为 Three.js 可交互分子动画 (拖滑块看断键·成键·原子重组,分步高亮),右为 KaTeX 反应方程 + 分步讲解 + 原子守恒计数 + 可选能量-反应进程曲线。支持三入口——给定文字反应/方程、随机出题、上传图片识别后演示。. Edu Chem Reaction is an agent skill from wy51ai/edulab.
Edu Chem Reaction fits situations like: tasks that involve Drug discovery and cheminformatics; tasks that involve Math and symbolic computation; tasks that involve 3D graphics and WebGL.
Run `npx skills add wy51ai/edulab --skill edu-chem-reaction -a claude-code`. Or copy the skill folder (skills/edu-chem-reaction in wy51ai/edulab) into .claude/skills/edu-chem-reaction in your project. Claude Code loads it when a task matches its description.
Run `npx skills add wy51ai/edulab --skill edu-chem-reaction -a codex`. Or copy the skill folder (skills/edu-chem-reaction in wy51ai/edulab) into .agents/skills/edu-chem-reaction in your project. Codex loads it when a task matches its description.
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add wy51ai/edulab --skill edu-chem-reaction -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/edu-chem-reaction, .gemini/skills/edu-chem-reaction, .github/skills/edu-chem-reaction and .opencode/skills/edu-chem-reaction in your project.
Going by SKILL.md and its folder, Edu Chem Reaction needs Python for the scripts in its folder and the command-line tools its instructions call (python3). Our summary lists: Python 3.
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. The check reads SKILL.md only: the scripts in the folder are not scanned, so read them before running anything.
Edu Chem Reaction is published under the Apache-2.0 licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.
About 1.2k tokens (SKILL.md is roughly 4.8k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full. Its references folder adds about 2.6k tokens, read only when the agent opens those files.
Skills that share tags, products or a category with Edu Chem Reaction: Molecular Visualization 3dmol (jaechang-hits/SciAgent-Skills, 374 stars), Sympy (zLanqing/codex-claude-academic-skills, 4.7k stars), DiffDock Molecular Docking (K-Dense-AI/scientific-agent-skills, 48k stars) and Rowan (lamm-mit/scienceclaw, 246 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
wy51ai (a GitHub user) maintains it in wy51ai/edulab, which has 1,406 GitHub stars. The repository holds 6 skills in this directory. The repository was last updated on October 10, 2026.
Source: wy51ai/edulab on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.