Obsidian Bases
Atmosphere/atmosphere
Create and edit Obsidian Bases (.base files) with views, filters, formulas, and summaries.
Agent skill
Obsidian Link Graph
by brycewang-stanford in brycewang-stanford/Auto-Empirical-Research-Skills
A skill your agent uses when the user wants to repair or strengthen Obsidian wikilinks among existing canonical project notes, especially across papers, knowledge notes, experiments, results, and…
Custom licenceAuto-check passed
Install Obsidian Link Graph
$ npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills obsidian-link-graph --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/brycewang-stanford/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph .claude/skills/obsidian-link-graph && 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 "obsidian-link-graph" agent skill from https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph into .claude/skills/obsidian-link-graph/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "obsidian-link-graph", 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/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graphType 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 brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills obsidian-link-graph --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph .agents/skills/obsidian-link-graph && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "obsidian-link-graph" agent skill from https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph into .agents/skills/obsidian-link-graph/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "obsidian-link-graph", 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 brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills obsidian-link-graph --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph .cursor/skills/obsidian-link-graph && 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 "obsidian-link-graph" agent skill from https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph into .cursor/skills/obsidian-link-graph/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "obsidian-link-graph", 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/brycewang-stanford/Auto-Empirical-Research-Skills.git --path skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph--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 brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills obsidian-link-graph --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph .gemini/skills/obsidian-link-graph && 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 "obsidian-link-graph" agent skill from https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph into .gemini/skills/obsidian-link-graph/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "obsidian-link-graph", 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 brycewang-stanford/Auto-Empirical-Research-Skills obsidian-link-graphInstalls 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 brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph .github/skills/obsidian-link-graph && 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 "obsidian-link-graph" agent skill from https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph into .github/skills/obsidian-link-graph/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "obsidian-link-graph", 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 brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install brycewang-stanford/Auto-Empirical-Research-Skills obsidian-link-graph --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph .opencode/skills/obsidian-link-graph && 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 "obsidian-link-graph" agent skill from https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/main/skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph into .opencode/skills/obsidian-link-graph/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "obsidian-link-graph", 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.
Facts
- Skill name
obsidian-link-graph- GitHub stars
- 4.5k
- Token cost
- ~353 tokens
- SKILL.md length
- 151 words
- Files
- 1
- Skills in repo
- 383
- Repo updated
- First seen
- Licence
- Custom licence
At a glance
A skill your agent uses when the user wants to repair or strengthen Obsidian wikilinks among existing canonical project notes, especially across papers, knowledge notes, experiments, results, and…
- The user wants to repair
- SKILL.md covers Responsibilities, Link heuristics and Do not assume by default
- Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md
- Strengthen Obsidian wikilinks among existing canonical project notes
What it does
Obsidian Link Graph is an agent skill from brycewang-stanford/Auto-Empirical-Research-Skills. Use this skill when the user wants to repair or strengthen Obsidian wikilinks among existing canonical project notes, especially across papers, knowledge notes, experiments, results, and writing.
Its SKILL.md is about 350 tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It works with Obsidian. The repository describes itself as: 🔬 A curated collection of 23,000+ agent skills for empirical research across 8 social science disciplines. | 精选 23,000+ AI Agent 技能库，覆盖8大社会科学学科的实证研究。CoPaper.AI…
When your agent uses it
- The user wants to repair
- Strengthen Obsidian wikilinks among existing canonical project notes
- Especially across papers
- Knowledge notes
Example prompts
- “/obsidian-link-graph”
What it can do on your machine
Read from SKILL.md and the folder at commit 9fa87d8. It shows what the files ask for, not the result of running them.
Tool permissions
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.
Runs code
No scripts in the folder and no shell commands in SKILL.md.
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Obsidian Link Graph loads about 353 tokens when it runs. Until then it costs about 54 tokens; SKILL.md has 151 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.
Safety
Auto-check passed
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); files beside SKILL.md are not scanned.
SKILL.md
Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 151 words (~353 tokens).
“This is a legacy compatibility helper.”
- name
- obsidian-link-graph
Files
Just SKILL.md in skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph of brycewang-stanford/Auto-Empirical-Research-Skills.
Open the folder on GitHubat commit 9fa87d8
Compare with similar skills
Obsidian Link Graph 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 |
|---|---|---|---|---|---|---|
| Obsidian Link Graph this skillbrycewang-stanford/Auto-Empirical-Research-Skills | 4.5k | — | ~353 | Automated safety check: Pass | Custom licence | |
| Obsidian BasesAtmosphere/atmosphere | 3.8k | 22 repos | ~3.2k | Automated safety check: Pass | Apache-2.0 | |
| Knap Markdown Templateskepano/obsidian-skills | 49k | 2 repos | ~986 | Automated safety check: Pass | MIT | |
| JSON Canvasheyitsnoah/claudesidian | 2.6k | 18 repos | ~3.5k | Automated safety check: Pass | MIT | |
| Obsidian MarkdownAtmosphere/atmosphere | 3.8k | 20 repos | ~1.3k | Automated safety check: Pass | Apache-2.0 | |
| Obsidian CLIAtmosphere/atmosphere | 3.8k | 13 repos | ~795 | Automated safety check: Pass | Apache-2.0 |
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Create and edit JSON Canvas files (.canvas) with nodes, edges, groups, and connections.
Obsidian Markdown
Atmosphere/atmosphere
Create and edit Obsidian Flavored Markdown with wikilinks, embeds, callouts, properties, and other Obsidian-specific syntax.
Obsidian CLI
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Obsidian Canvas Creator
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Related
Works with
Questions about Obsidian Link Graph
What does Obsidian Link Graph do?
A skill your agent uses when the user wants to repair or strengthen Obsidian wikilinks among existing canonical project notes, especially across papers, knowledge notes, experiments, results, and…. Obsidian Link Graph is an agent skill from brycewang-stanford/Auto-Empirical-Research-Skills. Use this skill when the user wants to repair or strengthen Obsidian wikilinks among existing canonical project notes, especially across papers, knowledge notes, experiments, results, and writing.
When should I use Obsidian Link Graph?
Obsidian Link Graph fits situations like: the user wants to repair; strengthen Obsidian wikilinks among existing canonical project notes; especially across papers; knowledge notes.
How do I install Obsidian Link Graph in Claude Code?
Run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a claude-code`. Or copy the skill folder (skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph in brycewang-stanford/Auto-Empirical-Research-Skills) into .claude/skills/obsidian-link-graph in your project. Claude Code loads it when a task matches its description.
How do I install Obsidian Link Graph in Codex?
Run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a codex`. Or copy the skill folder (skills/33-Galaxy-Dawn-claude-scholar/skills/obsidian-link-graph in brycewang-stanford/Auto-Empirical-Research-Skills) into .agents/skills/obsidian-link-graph in your project. Codex loads it when a task matches its description.
Can I use Obsidian Link Graph in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill obsidian-link-graph -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/obsidian-link-graph, .gemini/skills/obsidian-link-graph, .github/skills/obsidian-link-graph and .opencode/skills/obsidian-link-graph in your project.
What does Obsidian Link Graph need to run?
SKILL.md names no scripts, command-line tools or credentials: Obsidian Link Graph is instructions for the agent only.
Does Obsidian Link Graph access the network?
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.
Is Obsidian Link Graph safe to install?
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. Review the folder before installing.
What licence does Obsidian Link Graph use?
Obsidian Link Graph has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.
How many tokens does Obsidian Link Graph use?
About 353 tokens (SKILL.md is roughly 1.4k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
What are the alternatives to Obsidian Link Graph?
Skills that share tags, products or a category with Obsidian Link Graph: Obsidian Bases (Atmosphere/atmosphere, 3.8k stars), Knap Markdown Templates (kepano/obsidian-skills, 49k stars), JSON Canvas (heyitsnoah/claudesidian, 2.6k stars) and Obsidian Markdown (Atmosphere/atmosphere, 3.8k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Obsidian Link Graph?
brycewang-stanford (a GitHub user) maintains it in brycewang-stanford/Auto-Empirical-Research-Skills, which has 4,542 GitHub stars. The repository holds 383 skills in this directory. The repository was last updated on October 5, 2026.
Source: brycewang-stanford/Auto-Empirical-Research-Skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.