ThoughtDAG MCP Server

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ThoughtDAG

AI conversations that branch on an infinite canvas.

Each exchange becomes a node. Wires are the context.<br/> Explore a side question, connect useful paths, and choose what the model sees next.

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0.5 update · CLI · Harness · Desktop · How it works · How it differs · Research

New in 0.5 · ThoughtDAG × Jev

Bring relevant past conversations into the question you are asking now.

• Find earlier work. The local index searches supported agent sessions and ThoughtDAG canvases. Topic dossiers collect decisions and open questions with links back to their sources.
• Select what belongs. The optional Jev decision layer helps identify topics and rank relevant excerpts. Your chosen language model develops the answer.
• Check what comes back. With recall enabled, the context panel lists the dossiers and excerpts added to a request. Inspect their sources or exclude individual items before continuing.

<img src="docs/jev-relevance-en.gif" width="100%" alt="Animated replay of a small relevance-selection pilot: Jev median 391 milliseconds versus 24,813 milliseconds for the GLM judgment adapter with default reasoning. Ends with historical nodes converging into Jev. This is not end-to-end retrieval timing."/>

In a small relevance-selection pilot, Jev's median was 391 ms versus 24,813 ms for our GLM adapter. These are selection-stage timings, not end-to-end search or answer times.

<details> <summary>What the timing measures</summary>

Six runs per engine over the same 14 synthetic excerpts. Median selection latency: 391 ms for Jev-1.13 and 24,813 ms for the GLM-5.3-Flash adapter with default reasoning. These are different inference paths, not a controlled ranking of model speed. Retrieval and answer generation are excluded; this does not measure whole-product speed or accuracy gains.

Without a decision model, recall falls back to rules. The System 1 / System 2-style split describes software roles here: quick relevance decisions, then answer and dossier generation. It is not a claim about human cognition.

</details>

Set up history and recall · Configure Jev

Find past context from the command line

Remember a file, a phrase or a URL, but not the session? Search local conversations and jump to the matching turn, without opening the desktop app.

npx thoughtdag why src/lib/api.ts           # conversations about this file
npx thoughtdag find "a phrase you remember" # matching conversation turns
npx thoughtdag topics                       # topics in your local index

For regular use: npm install -g thoughtdag. Run thoughtdag setup mcp to expose read-only history tools to your agent. Retrieve the relevant turns rather than replaying a whole session. CLI guide →

Inside DeepSeek Harness

Switch between chat and ThoughtDAG's graph inside the harness. Choose the context on the canvas; the harness runs the next turn.

In the DeepSeek Harness desktop app: open Plugins, choose Add plugin, and enter dsh-thoughtdag. For the web profile, from the command line:

dsh plugin --profile web add dsh-thoughtdag
dsh web

The plugin bundles the canvas and memory layer. Requires Node 22.19+ (22.x) or 24+, and DeepSeek Harness 0.1.2-rc.1 or later. Plugin guide →

<img src="docs/harness-plugin-en.gif" alt="Switching from chat to the ThoughtDAG canvas inside DeepSeek Harness, asking a question and continuing in a new node." width="100%"/>

The desktop app

Read a document beside your conversation, branch from a passage, and connect the paths you want to explore together. Use your own model connection.

brew install --cask thoughtdag

Or download for macOS, Windows or Linux, connect a model and open the example canvas.

<img src="docs/hero-demo-en.gif" width="100%" alt="ThoughtDAG in use: ask from a document, branch a conversation, and edit the connections that carry context."/> <p align="center"><a href="https://www.youtube.com/watch?v=-8BqAyaoNXQ"><img src="https://img.youtube.com/vi/-8BqAyaoNXQ/maxresdefault.jpg" alt="Official YouTube thumbnail: ThoughtDAG narrated tour" width="640"/></a></p> <p align="center"><a href="https://www.youtube.com/watch?v=-8BqAyaoNXQ">▶ Watch the 33-second tour</a></p>

The one rule

Wires are the context. Connect conversation paths to use them in the next question. Disconnect a path without deleting the work.

Branch from a detail, explore it separately, then connect the useful parts to a later question. The graph changes the model's input, not just the layout.

Preview what the model will receive before sending. Wires select the conversation paths; explicit references and enabled recall can add material alongside them. Context guide →

In action

<table><tr> <td width="45%"><img src="docs/illus/prune-en.svg" alt="A research path remains connected to a summary while an unrelated dinner branch is disconnected but stays on the canvas."/></td> <td width="55%">

✂️ Change the context, keep the exploration

Select text in an answer to start a side branch. Disconnect that branch from a later question, then regenerate to compare. Its nodes stay on the canvas: keep exploring from them or reconnect them later.

</td></tr></table> <table><tr><td width="55%">

📖 Read, clip, and ask

Open a PDF, image or HTML alongside the graph. Ask about a passage or clip a figure into its own node. PDF clips keep their page reference, so you can check the source as the discussion develops.

</td> <td width="45%"><img src="docs/illus/reading-en.svg" alt="Selecting a passage in a PDF, asking about it and retaining a reference to page 3."/></td> </tr></table> <table><tr> <td width="45%"><img src="docs/illus/map-en.svg" alt="Conversation nodes shown as compact takeaways, with decisions and changes of direction visible."/></td> <td width="55%">

💎 Condense the path; weave the highlights

Condense creates a shorter copy of a conversation path while preserving the original. Weave turns selected highlights into cited prose. Continue from the result, or export it as Markdown. Zooming out changes the view, not the context.

</td></tr></table> <table><tr><td width="55%">

🧭 Session Atlas: continue an earlier conversation

Open a supported local agent session as a graph. Pick where to branch or continue; use the history index to find related discussions from other sessions. Atlas provides the view, and recall helps find what to bring in.

Supports local Claude Code, Codex, DeepSeek Harness and Pi sessions. Source sessions remain read-only.

</td> <td width="45%"><img src="docs/illus/atlas-en.svg" alt="Local agent sessions grouped by project, opened as a context graph and continued in a fresh session."/></td> </tr></table>

How ThoughtDAG differs

Nodes and edges serve different purposes. Here is where ThoughtDAG fits:

Product category	ThoughtDAG's focus
Linear chat	Keep several lines of inquiry visible and choose which ones continue into the next question.
Mind maps and whiteboards	Use connections to change model input, not just organize ideas visually.
Branching chat canvases	Connect several branches into one question, or disconnect a path while keeping its nodes.
Agent workflow canvases	Edit conversational context as you explore, rather than design a pipeline of automated tasks.
Retrieval and automatic memory	Inspect source-linked dossiers and recalled excerpts; edit or exclude what the next request uses.
Code graphs and conversation search	Find the discussions behind a file or topic across supported agents, then continue from them.
Harness context viewers	Move from inspecting a session to composing and sending its next turn.

These categories overlap; individual tools may share capabilities. ThoughtDAG is not an autonomous research agent or a replacement for your coding harness. Retrieval can miss relevant history, and generated dossiers still need checking.

🗺️ Export the shape of your thinking

Export the canvas as a Thought Map: nodes, wires and structural counts, without the full conversation text. Use it to share how an investigation branched, narrowed and came together.

<img src="docs/thought-map-four-en.png" alt="Four Thought Map exports showing different patterns of exploration, from a single thread to a branching literature review." width="100%"/>

More ways to run

Run from source

npm install
npm run server    # LLM proxy :3001
npm run dev       # frontend :5173

Configure a model in the app or through environment variables. Local setup →

Browser demo

The browser demo includes an example canvas that needs no API key. It is a subset: local session discovery, Session Atlas and the local history/memory layer require desktop or local hosting.

🧪 Research: Why editable context matters

Context Intervention Benchmark · Pilot v2

9 model endpoints · 1,485 scored responses · exact-match scoring

Deleting a wrong claim may leave its consequences in later replies. In our synthetic pilot, removing the source alone repaired 152 of 162 affected model-cases; removing the contaminated subgraph repaired 162, and recomputing descendants repaired 161. The report includes the protocol, results and limitations. This is a context-intervention experiment, not a general model leaderboard.

Read the case study · Methods and results · Suggest a model

More capabilities

Capability	What it adds to the same workflow
Request preview	Check the conversation, references and recalled material assembled for the next call.
Staleness and replay	Review dependent answers after an upstream edit; rerun in dependency order.
Per-node model selection	Try a different model on a branch without changing the entire canvas.
Read-only sharing	Share a graph for others to inspect; preview its contents before publishing.
Folder backup	Save canvases as local files and keep a recoverable copy outside browser storage.

Full capabilities and roadmap →

Models, cost & privacy

Canvases, documents, the index and dossiers are stored locally. Remote model calls send relevant content to your configured providers, including decision and dossier-generation calls. Provider charges may apply; disabling Jev does not disable ordinary model calls.

Connect local Ollama or an OpenAI-compatible endpoint. Inside DeepSeek Harness, inference uses the harness's providers and keys. Export backups and Markdown, and review text and metadata before sharing. Setup and privacy details →

Contributors

<a href="https://github.com/KehanLiu" title="@KehanLiu"><img src="https://github.com/KehanLiu.png?size=80" width="40" height="40" alt="@KehanLiu" /></a> <a href="https://github.com/nasodaengineer" title="@nasodaengineer"><img src="https://github.com/nasodaengineer.png?size=80" width="40" height="40" alt="@nasodaengineer" /></a> <a href="https://github.com/hexu321" title="@hexu321"><img src="https://github.com/hexu321.png?size=80" width="40" height="40" alt="@hexu321" /></a> <a href="https://github.com/Moya-Doc" title="@Moya-Doc"><img src="https://github.com/Moya-Doc.png?size=80" width="40" height="40" alt="@Moya-Doc" /></a> <a href="https://github.com/nanami-0713" title="@nanami-0713"><img src="https://github.com/nanami-0713.png?size=80" width="40" height="40" alt="@nanami-0713" /></a> <a href="https://github.com/LHN-xiao-hai-tun" title="@LHN-xiao-hai-tun"><img src="https://github.com/LHN-xiao-hai-tun.png?size=80" width="40" height="40" alt="@LHN-xiao-hai-tun" /></a> <a href="https://github.com/HarveyZed" title="@HarveyZed"><img src="https://github.com/HarveyZed.png?size=80" width="40" height="40" alt="@HarveyZed" /></a> <a href="https://github.com/Pireirik" title="@Pireirik"><img src="https://github.com/Pireirik.png?size=80" width="40" height="40" alt="@Pireirik" /></a>

Contributions are welcome — start with CONTRIBUTING.md.

Supporters

With gratitude to @andreilaiter, ThoughtDAG's first supporter, and to everyone helping this independent open-source project grow.

<a href="https://buymeacoffee.com/chatchan92"><img src="docs/supporters/support-thoughtdag.svg" alt="Support ThoughtDAG" width="252" /></a>

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MIT © 2026 Xia Chen · Roadmap · Feedback · Cite

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