GitNexus

⚠️ Important Notice: GitNexus has NO official cryptocurrency, token, or coin. Any token/coin using the GitNexus name on Pump.fun or any other platform is not affiliated with, endorsed by, or created by this project or its maintainers. Do not purchase any cryptocurrency claiming association with GitNexus.

The nervous system for agent context.

Indexes any codebase into a knowledge graph — every dependency, call chain, cluster, and execution flow — then exposes it through smart MCP tools so AI agents never miss code.

💬 Discord · 🌐 Web UI · 🏢 Enterprise (SaaS & self-hosted)

https://github.com/user-attachments/assets/172685ba-8e54-4ea7-9ad1-e31a3398da72

Like DeepWiki, but deeper. DeepWiki helps you understand code. GitNexus lets you analyze it — a knowledge graph tracks every relationship, not just descriptions.

TL;DR: The CLI + MCP makes your AI agent reliable — it gives Cursor, Claude Code, Antigravity, Codex, and friends a deep architectural view of your codebase so they stop missing dependencies, breaking call chains, and shipping blind edits. Even smaller models get full architectural clarity. The Web UI is a quick way to chat with any repo in the browser.

Quick Start

# 1. Index your repo (run from repo root)
npx gitnexus analyze

# 2. Connect your editors (one-time, auto-detects Claude Code, Cursor, Codex, …)
npx gitnexus setup

That's it. analyze indexes the codebase, installs agent skills, registers Claude Code hooks, and creates AGENTS.md / CLAUDE.md context files — all in one command. setup writes the MCP config so your AI agent can use the graph.

Install problems? npm 11 crash · slow cold install · no C++ toolchain

On npm 11.x? npx can crash during install with Cannot destructure property 'package' of 'node.target' (an npm/arborist bug, before GitNexus runs). Use pnpm instead — it builds the native deps explicitly:

pnpm --allow-build=@ladybugdb/core --allow-build=gitnexus --allow-build=tree-sitter dlx gitnexus@latest analyze

Or install globally (npm install -g gitnexus@latest) and run gitnexus analyze. See #1939.

Fastest MCP startup: install globally (npm i -g gitnexus) before running gitnexus setup — this writes an absolute-path MCP config that bypasses npx entirely. On a cold cache, an npx-based MCP install can exceed Claude Code's MCP_TIMEOUT default (~30s).

No C++ toolchain? Set GITNEXUS_SKIP_OPTIONAL_GRAMMARS=1 before npm install -g gitnexus to skip the vendored grammar materialize/build for tree-sitter-dart, tree-sitter-proto, tree-sitter-swift, and tree-sitter-kotlin — those four languages won't be parsed, but install completes in seconds without python3/make/g++. Strict =1 only — any other value falls through to the rebuild.

Behind an HTTP proxy / regional firewall? onnxruntime-node's postinstall downloads optional CUDA binaries from api.nuget.org and ignores HTTP_PROXY/HTTPS_PROXY (#2370). The embedding stack is an optional dependency, so a failed download no longer breaks the install — and it self-heals: the first gitnexus analyze --embeddings (or gitnexus embeddings install) fetches the stack through your npm registry config (mirrors/proxies apply, no NuGet) into ~/.gitnexus/embedding-runtime (override with GITNEXUS_EMBEDDING_RUNTIME_DIR). The on-demand prefix needs Node with module.registerHooks (≥ 22.15 on 22.x, ≥ 23.5 on 23.x); on older Node, keep the stack in the install itself with ONNXRUNTIME_NODE_INSTALL=skip npm install -g gitnexus (works on every supported Node).

About tree-sitter-kotlin: like Dart/Proto/Swift, Kotlin is a vendored grammar (under gitnexus/vendor/tree-sitter-kotlin). Upstream ships source only (no prebuilt binaries), so GitNexus cross-builds the platform prebuilds itself (via the build-tree-sitter-prebuilds GitHub Actions workflow) and vendors them — the same uniform pipeline used for Dart, Proto, and Swift. node-gyp-build selects the right .node at require time, so no C/C++ toolchain is needed. If no prebuild matches your platform-arch, only Kotlin (.kt/.kts) parsing is unavailable; the rest of gitnexus is unaffected.

Two Ways to Use GitNexus

	CLI + MCP (recommended)	Web UI
What	Index repos locally, connect AI agents via MCP	Visual graph explorer + AI chat in browser
For	Daily development with Cursor, Claude Code, Antigravity, Codex, Windsurf, OpenCode	Quick exploration, demos, one-off analysis
Scale	Full repos, any size	Limited by browser memory (~5k files), or unlimited via backend mode
Install	npm install -g gitnexus	No install — gitnexus.vercel.app
Storage	LadybugDB native (fast, persistent)	LadybugDB WASM (in-memory, per session)
Parsing	Tree-sitter native bindings	Tree-sitter WASM
Privacy	Everything local, no network	Everything in-browser, no server

Bridge mode: gitnexus serve connects the two — the web UI auto-detects the local server and can browse all your CLI-indexed repos without re-uploading or re-indexing.

Why a Knowledge Graph?

Tools like Cursor, Claude Code, Codex, Cline, Roo Code, and Windsurf are powerful — but they don't truly know your codebase structure. So this happens:

1. AI edits UserService.validate()
2. Doesn't know 47 functions depend on its return type
3. Breaking changes ship

Traditional Graph RAG gives the LLM raw graph edges and hopes it explores enough. GitNexus precomputes structure at index time — clustering, tracing, scoring — so tools return complete context in one call:

flowchart TB
    subgraph Traditional["Traditional Graph RAG"]
        direction TB
        U1["User: What depends on UserService?"]
        U1 --> LLM1["LLM receives raw graph"]
        LLM1 --> Q1["Query 1: Find callers"]
        Q1 --> Q2["Query 2: What files?"]
        Q2 --> Q3["Query 3: Filter tests?"]
        Q3 --> Q4["Query 4: High-risk?"]
        Q4 --> OUT1["Answer after 4+ queries"]
    end

    subgraph GN["GitNexus Smart Tools"]
        direction TB
        U2["User: What depends on UserService?"]
        U2 --> TOOL["impact UserService upstream"]
        TOOL --> PRECOMP["Pre-structured response:
        8 callers, 3 clusters, all 90%+ confidence"]
        PRECOMP --> OUT2["Complete answer, 1 query"]
    end

Core innovation: Precomputed Relational Intelligence

• Reliability — the LLM can't miss context; it's already in the tool response
• Token efficiency — no 10-query chains to understand one function
• Model democratization — smaller LLMs work because the tools do the heavy lifting

What Your AI Agent Gets

17 MCP tools (15 per-repo + 2 group)

Tool	What It Does
list_repos	Discover all indexed repositories (paginated — limit/offset)
query	Process-grouped hybrid search (BM25 + semantic + RRF)
context	360-degree symbol view — categorized refs, process participation
impact	Blast radius analysis with depth grouping and confidence
trace	Shortest directed path between two symbols (call + class-member edges)
detect_changes	Git-diff impact — maps changed lines to affected processes
check	Read-only structural checks against the indexed graph
rename	Multi-file coordinated rename with graph + text search
cypher	Raw Cypher graph queries
route_map	API route map — which components fetch which endpoints, and handlers
tool_map	MCP/RPC tool definitions — where they're defined and handled
shape_check	Validate API response shapes against consumers' property accesses
api_impact	Pre-change impact report for an API route handler
explain	Explain persisted taint findings (source→sink flows, --pdg indexes)
pdg_query	Query control/data dependence at statement level (--pdg indexes)
group_list	List configured repository groups
group_sync	Rebuild a group's Contract Registry and cross-repo links

Per-repo tools take an optional repo parameter (omit it when only one repo is indexed) and an optional branch for indexes pinned with gitnexus analyze --branch. Omitting branch queries the workspace index, which follows your checked-out working tree — switching branches and re-running gitnexus analyze updates it incrementally. explain and pdg_query need an index built with gitnexus analyze --pdg.

Resources for instant context

Resource	Purpose
gitnexus://repos	List all indexed repositories (read this first)
gitnexus://setup	Setup and usage guidance for agents
gitnexus://repo/{name}/context	Codebase stats, staleness check, and available tools
gitnexus://repo/{name}/clusters	All functional clusters with cohesion scores
gitnexus://repo/{name}/cluster/{name}	Cluster members and details
gitnexus://repo/{name}/processes	All execution flows
gitnexus://repo/{name}/process/{name}	Full process trace with steps
gitnexus://repo/{name}/schema	Graph schema for Cypher queries
gitnexus://group/{name}/contracts	A group's extracted contracts and cross-links
gitnexus://group/{name}/status	Staleness of repos in a group

2 MCP prompts for guided workflows

Prompt	What It Does
detect_impact	Pre-commit change analysis — scope, affected processes, risk level
generate_map	Architecture documentation from the knowledge graph with mermaid diagrams

6 agent skills installed to .claude/skills/ automatically

• Exploring — navigate unfamiliar code using the knowledge graph
• Debugging — trace bugs through call chains
• Impact Analysis — analyze blast radius before changes
• Refactoring — plan safe refactors using dependency mapping
• Guide — GitNexus tool/resource/schema reference for the agent
• CLI — run analyze/status/clean/wiki commands on request

Repo-specific skills — run gitnexus analyze --skills and GitNexus detects the functional areas of your codebase (via Leiden community detection) and generates a SKILL.md for each one under .claude/skills/generated/. Each skill describes a module's key files, entry points, execution flows, and cross-area connections, and is regenerated on each --skills run to stay current.

Editor Setup

gitnexus setup auto-detects your editors and writes the correct global MCP config. Run it once. To configure only selected integrations, pass --coding-agent/-c with a comma-separated list, e.g. gitnexus setup -c cursor,codex.

Editor	MCP	Skills	Hooks (auto-augment)	Support
Claude Code	Yes	Yes	Yes (PreToolUse + PostToolUse)	Full
Cursor	Yes	Yes	Yes (postToolUse, manual install)	Full
Antigravity (Google)	Yes	Yes	Yes (AfterTool, Gemini CLI hooks schema)¹	Full
Codex	Yes	Yes	Yes (PreToolUse + PostToolUse, Codex hooks)	Full
OpenCode	Yes	Yes	—	MCP + Skills
CodeBuddy (Tencent)	Yes	Yes	—	MCP + Skills
Qoder (Alibaba)	Yes	Yes	—	MCP + Skills
Windsurf	Yes	—	—	MCP

Claude Code and Codex get the deepest integration: MCP tools + agent skills + PreToolUse hooks that enrich searches with graph context + PostToolUse hooks that detect a stale index after commits and prompt the agent to reindex.

¹ Antigravity hooks follow the Gemini CLI hooks reference (Antigravity 2.0 is the documented successor to Gemini CLI). Augmentation runs in AfterTool because BeforeTool has no context-injection channel in the Gemini contract — the agent sees graph context appended to the tool result via hookSpecificOutput.additionalContext. Stale-index hints land in the same channel after a successful git commit/merge/rebase/cherry-pick/pull. The schema may evolve if Antigravity-specific hook docs diverge from Gemini CLI's; the implementation will track those changes.

Manual MCP configuration (if you prefer not to run gitnexus setup)

Claude Code (full support — MCP + skills + hooks):

# macOS / Linux
claude mcp add gitnexus -- npx -y gitnexus@latest mcp

# Windows
claude mcp add gitnexus -- cmd /c npx -y gitnexus@latest mcp

Codex (full support — MCP + skills + hooks):

codex mcp add gitnexus -- npx -y gitnexus@latest mcp

Or via ~/.codex/config.toml (system scope) / .codex/config.toml (project scope):

[mcp_servers.gitnexus]
command = "npx"
args = ["-y", "gitnexus@latest", "mcp"]

Codex hooks (PreToolUse graph enrichment + PostToolUse stale-index detection in ~/.codex/hooks.json, same schema as Claude Code) need the bundled adapter script, so they are installed by gitnexus setup -c codex rather than manually.

Alternatively, install everything as a Codex plugin (MCP + skills + hooks in one step):

codex plugin marketplace add abhigyanpatwari/GitNexus
# then inside Codex: /plugins → install "GitNexus"

Codex notes: SessionStart is intentionally not registered — Codex reads AGENTS.md natively, which already carries the GitNexus context block. Newly installed hooks need a one-time approval in Codex via /hooks before they run. Pick one install route (gitnexus setup -c codex or the plugin): plugin hooks load alongside ~/.codex/hooks.json, so installing both can fire duplicate hooks per tool call.

Cursor (~/.cursor/mcp.json — global, works for all projects):

{
  "mcpServers": {
    "gitnexus": {
      "command": "npx",
      "args": ["-y", "gitnexus@latest", "mcp"]
    }
  }
}

Antigravity (Google) — ~/.gemini/antigravity/mcp_config.json:

{
  "mcpServers": {
    "gitnexus": {
      "command": "npx",
      "args": ["-y", "gitnexus@latest", "mcp"]
    }
  }
}

gitnexus setup also merges an AfterTool entry into ~/.gemini/settings.json (under the canonical Gemini CLI hooks schema) and installs skills to ~/.gemini/antigravity/skills/. Existing user hooks are preserved. The hook adapter's path is rewritten at install time, so run gitnexus setup rather than hand-editing.

OpenCode (~/.config/opencode/config.json):

{
  "mcp": {
    "gitnexus": {
      "type": "local",
      "command": ["gitnexus", "mcp"]
    }
  }
}

CodeBuddy (Tencent) — priority chain, edit the first non-empty file that exists: ~/.codebuddy/.mcp.json (recommended) → ~/.codebuddy/mcp.json (deprecated) → ~/.codebuddy.json (legacy). CodeBuddy reads only the first existing file, so adding servers to a higher-priority file than the one currently in use would hide the servers below it. Create ~/.codebuddy/.mcp.json only if none exist:

{
  "mcpServers": {
    "gitnexus": {
      "command": "npx",
      "args": ["-y", "gitnexus@latest", "mcp"]
    }
  }
}

Qoder (Alibaba) — ~/.qoder.json:

{
  "mcpServers": {
    "gitnexus": {
      "command": "npx",
      "args": ["-y", "gitnexus@latest", "mcp"]
    }
  }
}

CLI Reference

Everyday commands:

gitnexus setup                   # Configure MCP for detected editors (one-time; -c to select)
gitnexus analyze [path]          # Index a repository (or update a stale index)
gitnexus mcp                     # Start MCP server (stdio) — serves all indexed repos
gitnexus serve                   # Start local HTTP server (multi-repo) for web UI connection
gitnexus list                    # List all indexed repositories
gitnexus status                  # Show index status for current repo
gitnexus clean                   # Delete index for current repo
gitnexus wiki [path]             # Generate repository wiki from knowledge graph
gitnexus uninstall               # Preview removal of GitNexus MCP/skills/hooks (--force to apply)

You can also query the graph directly from the terminal — gitnexus query, context, impact, trace, cypher, detect-changes, and check mirror the MCP tools of the same names, and gitnexus doctor prints runtime platform capabilities.

All analyze flags

gitnexus analyze --force         # Full rebuild: re-parse + graph rebuild + FTS rebuild
gitnexus analyze --repair-fts    # Fast path: rebuild/verify only FTS indexes on existing index data
gitnexus analyze --skills        # Generate repo-specific skill files from detected communities
gitnexus analyze --skip-embeddings  # Skip embedding generation (faster)
gitnexus analyze --embeddings [limit]  # Enable embedding generation (slower, better search)
gitnexus analyze --skip-agents-md   # Preserve custom AGENTS.md/CLAUDE.md gitnexus section edits
gitnexus analyze --skip-skills      # Skip installing .claude/skills/gitnexus/ skill files
gitnexus analyze --skip-git         # Index folders that are not Git repositories
gitnexus analyze --default-branch develop  # Branch used in the generated regression-compare example (base_ref)
gitnexus analyze --verbose       # Log skipped files when parsers are unavailable
gitnexus analyze --worker-timeout 60  # Increase worker idle timeout for slow parses
gitnexus analyze --workers <n>   # Parse worker pool size (>=1; default: cores-1, capped at 16,
                                 # auto-sized to the repo). 0 is rejected — there is no sequential mode.
gitnexus analyze --wal-checkpoint-threshold 67108864  # LadybugDB WAL auto-checkpoint threshold in bytes
                                 # (default 67108864 = 64 MiB; -1 keeps Ladybug stock ~16 MiB)

If analyze reports a worker parse timeout on a large or unusual repository, it keeps running and falls back safely. To give slow worker jobs more time, use --worker-timeout 60 or set GITNEXUS_WORKER_SUB_BATCH_TIMEOUT_MS=60000. For very large files, GITNEXUS_WORKER_SUB_BATCH_MAX_BYTES controls the worker job byte budget.

Embeddings node limit — gitnexus analyze --embeddings generates semantic search vectors with a default 50,000-node safety cap to protect memory on large repositories:

gitnexus analyze --embeddings          # default 50,000 node safety cap
gitnexus analyze --embeddings 0        # disable the cap entirely
gitnexus analyze --embeddings 100000   # custom cap

If embeddings are skipped on a large repository, the indexed graph likely exceeds the default cap — re-run with --embeddings 0 or a higher limit.

Repository groups (multi-repo / monorepo service tracking)

gitnexus group create <name>                           # Create a repository group
gitnexus group add <group> <groupPath> <registryName>  # Add a repo. <groupPath> is a hierarchy path
                                                       # (e.g. hr/hiring/backend); <registryName> is the
                                                       # repo's name from the registry (see `gitnexus list`)
gitnexus group remove <group> <groupPath>              # Remove a repo by its hierarchy path
gitnexus group list [name]                             # List groups, or show one group's config
gitnexus group sync <name>                             # Extract contracts and match across repos/services
gitnexus group contracts <name>                        # Inspect extracted contracts and cross-links
gitnexus group query <name> <q>                        # Search execution flows across all repos in a group
gitnexus group status <name>                           # Check staleness of repos in a group
gitnexus group impact <name> --target <symbol> --repo <groupPath>  # Cross-repo blast radius

Project config (.gitnexusrc)

Commit a .gitnexusrc JSON file at the repo root to preconfigure recurring analyze options per project, instead of re-passing the same flags every run. It is read from the resolved repo root (not .gitnexus/, which is gitignored index storage). CLI flags always override .gitnexusrc.

{
  // Default branch used in the generated regression-compare example (base_ref).
  // Use this so a project on `develop`/`master` doesn't get "main" rewritten
  // over its fix on every analyze. (Alias: "branch".)
  "defaultBranch": "develop",
  "skipContextFiles": true, // alias of skipAgentsMd: keep your own AGENTS.md/CLAUDE.md
  "skipSkills": true, // don't install .claude/skills/gitnexus/
  "embeddings": true, // generate embeddings by default
  "workerTimeout": 60
}

A nested analyze block is also accepted (and overrides flat keys for the same option):

{ "analyze": { "defaultBranch": "develop", "skipSkills": true } }

Notes:

• The default branch is resolved as: --default-branch > .gitnexusrc defaultBranch/branch > auto-detected origin/HEAD > main.
• skipContextFiles / skipAiContext are aliases for skipAgentsMd — they skip the AGENTS.md / CLAUDE.md block only. They do not imply skipSkills. indexOnly is the stronger option that skips all file injection.
• Supported keys: defaultBranch (branch), skipAgentsMd (skipContextFiles, skipAiContext), skipSkills, indexOnly, stats/noStats, embeddings, dropEmbeddings, name, allowDuplicateName, maxFileSize, workerTimeout, walCheckpointThreshold, workers, embeddingThreads, embeddingBatchSize, embeddingSubBatchSize, embeddingDevice.
• The file is JSON only. Unknown keys and invalid values fail fast with an actionable error before analysis starts.

Environment variables

Most analyze knobs are also CLI flags (--workers, --worker-timeout, --max-file-size, --verbose). Use the env-var form when you'd otherwise repeat the same flag every run, or when invoking GitNexus from a long-running host (MCP server, eval-server, CI shell) that already manages its own environment. CLI flags take precedence over env vars; env vars take precedence over built-in defaults.

Variable	Default	Effect	Tune when…
GITNEXUS_WORKER_POOL_SIZE	cores - 1, capped at 16	Parse worker pool size (must be ≥ 1). Equivalent to --workers <n>. The worker pool is the sole parse path — there is no sequential parser, so 0 is rejected with an actionable error (the pool self-heals via quarantine + respawn).	Constrained containers (cgroup CPU limits) or CI runners with explicit quotas. To narrow down a worker crash set 1 for a single-worker pool — not 0.
GITNEXUS_PARSE_CHUNK_CONCURRENCY	2	Number of chunks whose file contents may be read into memory in parallel while the pool dispatches the current chunk. Worker dispatch itself stays serial.	Repos large enough to chunk (multi-MB total source) where disk I/O is a measurable fraction of analyze wall-clock.
GITNEXUS_VERBOSE	unset	When 1, enables verbose ingestion logs (skipped-file warnings, per-chunk throughput, parse-cache stats). Equivalent to --verbose.	Debugging an analyze that "completed" but seems to have missed files; tuning --workers / chunk concurrency against observable throughput.
GITNEXUS_PROFILE_DEFERRED	unset	When 1, emits [deferred-profile] timing/progress logs for the post-chunk deferred resolution band (imports → heritage → buildHeritageMap → legacy call resolution). Implied by GITNEXUS_VERBOSE.	Diagnosing analyze stalls in "Resolving calls (all chunks)" on large Java/Kotlin repos (issue #1741) without the full verbose ingestion noise.
GITNEXUS_PROFILE_DEFERRED_SLOW_MS	3000 (verbose) / 5000	Per-file threshold in ms above which processCallsFromExtracted emits a slow file … log line. Parsed via Number(): accepts integers (5000), scientific notation (2.5e3), decimals (.5), and hex (0x10). Non-finite or non-positive values fall back to the default.	Hunting a few outlier files dominating the deferred call-resolution stage; lower to surface more, raise to focus only on the worst.
PROF_LBUG_LOAD	unset	When 1, emits one [lbug-load prof] summary line per loadGraphToLbug call breaking the graph-DB persistence wall into stages (csv-emit / copy-nodes / copy-rels / fallback / total) plus node & edge counts. Zero-cost when unset.	Attributing large-repo analyze wall time across CSV generation vs. LadybugDB COPY (issue #2203) — the analyze "emit" timing is the scope-resolution bucket, not this DB-write path.
GITNEXUS_MAX_FILE_SIZE	512 (KB)	Walker skip threshold in KB. Hard cap is 32768 (tree-sitter buffer ceiling). Equivalent to --max-file-size <kb>.	Indexing repos with intentionally-large source files (generated parsers, vendored bundles) that should still be parsed.
GITNEXUS_WORKER_SUB_BATCH_TIMEOUT_MS	30000	Worker idle timeout in milliseconds before retry/fallback. Equivalent to --worker-timeout <seconds> × 1000.	Slow-parsing files (large minified JS, deeply-nested TS types) that legitimately need more than 30s.
GITNEXUS_FTS_STEMMER	porter	Stemmer used when rebuilding BM25/FTS indexes. Use none for CJK-heavy repositories, or a language stemmer such as german, french, or spanish for matching repository comments. Re-run gitnexus analyze --repair-fts after changing it.	Keyword search quality is poor for non-English comments or identifiers under English stemming.
GITNEXUS_WAL_CHECKPOINT_THRESHOLD	67108864 (64 MiB)	LadybugDB WAL auto-checkpoint threshold in bytes. Equivalent to --wal-checkpoint-threshold <bytes>. -1 keeps LadybugDB's stock threshold (~16 MiB). Larger thresholds reduce checkpoint frequency but increase the WAL size at rotation time — choose a smaller value on disk-constrained environments.	You need a larger or smaller WAL auto-checkpoint threshold for your analyze workload.
GITNEXUS_WORKER_SUB_BATCH_MAX_BYTES	8388608 (8 MB)	Per-job byte budget the pool will send to a worker in one postMessage.	Very large individual files; mostly diagnostic — bumping past 8 MB risks structured-clone memory pressure.
GITNEXUS_WORKER_MAX_RESPAWNS_PER_SLOT	3	Max replacement spawns per worker slot before the slot is dropped from the active rotation. Bounds respawn loops on a chronically-crashing slot.	Hosts where a flaky worker should retry more (raise) or fail-fast (lower) before the slot is dropped.
GITNEXUS_WORKER_MAX_CUMULATIVE_TIMEOUT_MS	5 × subBatchTimeoutMs	Total retry wall-time budget per job before quarantining. Combined with timeoutBackoffFactor, prevents exponentially-growing retries from stalling for hours.	Slow files that legitimately need long total retry windows; lower to fail-fast on stalls.
GITNEXUS_WORKER_CONSECUTIVE_FAILURE_THRESHOLD	max(3, poolSize)	Per-slot consecutive deaths before the pool's circuit breaker trips. After tripping, every subsequent dispatch rejects until a fresh pool is created.	Hosts where a SIGSEGV-prone native grammar should trip the breaker sooner; CI runners that should fail loudly.
GITNEXUS_CHUNK_BYTE_BUDGET	2097152 (2 MB)	Chunk boundary used for cache-key composition and dispatch. Smaller = finer-grained cache hits but more dispatch overhead.	Tuning incremental-analyze cache behavior on monorepos.
GITNEXUS_NO_GITIGNORE	unset	When set, skips .gitignore parsing. .gitnexusignore is still honored.	Indexing a repo whose .gitignore excludes files you actually want indexed (e.g., generated code committed for cross-repo lookup).
GITNEXUS_SKIP_OPTIONAL_GRAMMARS	unset	When =1 strictly, skips the vendored grammar materialize for tree-sitter-dart, tree-sitter-proto, tree-sitter-swift, and tree-sitter-kotlin at install time (and the Dart/Proto source builds). Those four won't be parsed; the install still succeeds.	Installing on a host without a C++ toolchain or where the vendored prebuilds don't match; willing to skip Dart/Proto/Swift/Kotlin parsing.

gitnexus uninstall

gitnexus uninstall reverses gitnexus setup — it removes the GitNexus MCP entries, hooks, and skill directories it added to each detected editor. Skill directories are identified by bundled gitnexus skill name (e.g. gitnexus-cli/), so if you customized files inside an installed skill directory, back them up first. It is a dry-run preview by default and prints the exact paths it would remove; pass --force to apply. Per-repo indexes (gitnexus clean --all) and the global npm package (npm uninstall -g gitnexus) are left for you to remove.

Publishing to understand-quickly (opt-in)

looptech-ai/understand-quickly is a public registry of code-knowledge graphs that lists gitnexus@1 as a first-class format. After registering your repo once (npx @understand-quickly/cli add or the wizard), gitnexus publish fires a single repository_dispatch event so the registry resyncs your entry on demand instead of waiting for the nightly job.

It is opt-in and a no-op without UNDERSTAND_QUICKLY_TOKEN — a fine-grained GitHub PAT with Repository dispatches: write on the registry repo. Nothing else happens; no graph file is uploaded. See the protocol spec for the full contract.

How It Works

GitNexus builds a complete knowledge graph of your codebase through a multi-phase indexing pipeline:

1. Structure — walks the file tree and maps folder/file relationships
2. Parsing — extracts functions, classes, methods, and interfaces using Tree-sitter ASTs
3. Resolution — resolves imports, function calls, heritage, constructor inference, and self/this receiver types across files with language-aware logic
4. Clustering — groups related symbols into functional communities
5. Processes — traces execution flows from entry points through call chains
6. Search — builds hybrid search indexes for fast retrieval

Supported Languages

Language	Imports	Named Bindings	Exports	Heritage	Type Annotations	Constructor Inference	Config	Frameworks	Entry Points
TypeScript	✓	✓	✓	✓	✓	✓	✓	✓	✓
JavaScript	✓	✓	✓	✓	—	✓	✓	✓	✓
Python	✓	✓	✓	✓	✓	✓	✓	✓	✓
Java	✓	✓	✓	✓	✓	✓	—	✓	✓
Kotlin	✓	✓	✓	✓	✓	✓	—	✓	✓
C#	✓	✓	✓	✓	✓	✓	✓	✓	✓
Go	✓	—	✓	✓	✓	✓	✓	✓	✓
Rust	✓	✓	✓	✓	✓	✓	—	✓	✓
PHP	✓	✓	✓	—	✓	✓	✓	✓	✓
Ruby	✓	—	✓	✓	—	✓	—	✓	✓
Swift	—	—	✓	✓	✓	✓	✓	✓	✓
C	—	—	✓	—	✓	✓	—	✓	✓
C++	—	—	✓	✓	✓	✓	—	✓	✓
Dart	✓	—	✓	✓	✓	✓	—	✓	✓

Imports — cross-file import resolution · Named Bindings — import { X as Y } / re-export tracking · Exports — public/exported symbol detection · Heritage — class inheritance, interfaces, mixins · Type Annotations — explicit type extraction for receiver resolution · Constructor Inference — infer receiver type from constructor calls (self/this resolution included for all languages) · Config — language toolchain config parsing (tsconfig, go.mod, etc.) · Frameworks — AST-based framework pattern detection · Entry Points — entry point scoring heuristics

Control flow (CFG, opt-in --pdg) — per-function control-flow graphs (BasicBlock nodes + CFG edges) feeding the PDG/taint substrate, currently TypeScript & JavaScript (#2081 M1); other languages planned. Off by default.

Multi-Repo Architecture

GitNexus uses a global registry so one MCP server can serve multiple indexed repos. No per-project MCP config needed — set it up once and it works everywhere.

Each gitnexus analyze stores the index in .gitnexus/ inside the repo (portable, gitignored) and registers a pointer in ~/.gitnexus/registry.json. When an AI agent starts, the MCP server reads the registry and can serve any indexed repo. LadybugDB connections are opened lazily on first query and evicted after 5 minutes of inactivity (max 5 concurrent). If only one repo is indexed, the repo parameter is optional on all tools — agents don't need to change anything.

Architecture diagram

flowchart TD
    subgraph CLI [CLI Commands]
        Setup["gitnexus setup"]
        Analyze["gitnexus analyze"]
        Clean["gitnexus clean"]
        List["gitnexus list"]
    end

    subgraph Registry ["~/.gitnexus/"]
        RegFile["registry.json"]
    end

    subgraph Repos [Project Repos]
        RepoA[".gitnexus/ in repo A"]
        RepoB[".gitnexus/ in repo B"]
    end

    subgraph MCP [MCP Server]
        Server["server.ts"]
        Backend["LocalBackend"]
        Pool["Connection Pool"]
        ConnA["LadybugDB conn A"]
        ConnB["LadybugDB conn B"]
    end

    Setup -->|"writes global MCP config"| CursorConfig["~/.cursor/mcp.json"]
    Analyze -->|"registers repo"| RegFile
    Analyze -->|"stores index"| RepoA
    Clean -->|"unregisters repo"| RegFile
    List -->|"reads"| RegFile
    Server -->|"reads registry"| RegFile
    Server --> Backend
    Backend --> Pool
    Pool -->|"lazy open"| ConnA
    Pool -->|"lazy open"| ConnB
    ConnA -->|"queries"| RepoA
    ConnB -->|"queries"| RepoB

Tool Examples

Impact Analysis

impact({target: "UserService", direction: "upstream", minConfidence: 0.8})

TARGET: Class UserService (src/services/user.ts)

UPSTREAM (what depends on this):
  Depth 1 (WILL BREAK):
    handleLogin [CALLS 90%] -> src/api/auth.ts:45
    handleRegister [CALLS 90%] -> src/api/auth.ts:78
    UserController [CALLS 85%] -> src/controllers/user.ts:12
  Depth 2 (LIKELY AFFECTED):
    authRouter [IMPORTS] -> src/routes/auth.ts

Options: maxDepth, minConfidence, relationTypes (CALLS, IMPORTS, EXTENDS, IMPLEMENTS), includeTests, limit (max symbols per depth, default 100), offset (pagination start per depth), summaryOnly (counts and risk only, omits symbol list)

Disambiguation — when several symbols share the target name, impact returns a ranked ambiguous candidate list instead of guessing. Narrow it with target_uid (exact, zero-ambiguity), file_path, or kind (Function, Class, Method, …). From the CLI these are --uid, --file, and --kind, matching gitnexus context:

gitnexus impact get_embeddings                       # → ambiguous: lists ranked candidates
gitnexus impact get_embeddings --file src/embed.py   # → resolves to the one in that file
gitnexus impact get_embeddings --uid "Function:src/embed.py:get_embeddings"  # exact

More examples: search · context · detect_changes · rename · Cypher

Process-Grouped Search

query({search_query: "authentication middleware"})

processes:
  - summary: "LoginFlow"
    priority: 0.042
    symbol_count: 4
    process_type: cross_community
    step_count: 7

process_symbols:
  - name: validateUser
    type: Function
    filePath: src/auth/validate.ts
    process_id: proc_login
    step_index: 2

definitions:
  - name: AuthConfig
    type: Interface
    filePath: src/types/auth.ts

Context (360-degree Symbol View)

context({name: "validateUser"})

symbol:
  uid: "Function:validateUser"
  kind: Function
  filePath: src/auth/validate.ts
  startLine: 15

incoming:
  calls: [handleLogin, handleRegister, UserController]
  imports: [authRouter]

outgoing:
  calls: [checkPassword, createSession]

processes:
  - name: LoginFlow (step 2/7)
  - name: RegistrationFlow (step 3/5)

Detect Changes (Pre-Commit)

detect_changes({scope: "all"})

summary:
  changed_count: 12
  affected_count: 3
  changed_files: 4
  risk_level: medium

changed_symbols: [validateUser, AuthService, ...]
affected_processes: [LoginFlow, RegistrationFlow, ...]

Rename (Multi-File)

rename({symbol_name: "validateUser", new_name: "verifyUser", dry_run: true})

status: success
files_affected: 5
total_edits: 8
graph_edits: 6     (high confidence)
text_search_edits: 2  (review carefully)
changes: [...]

Cypher Queries

-- Find what calls auth functions with high confidence
MATCH (c:Community {heuristicLabel: 'Authentication'})<-[:CodeRelation {type: 'MEMBER_OF'}]-(fn)
MATCH (caller)-[r:CodeRelation {type: 'CALLS'}]->(fn)
WHERE r.confidence > 0.8
RETURN caller.name, fn.name, r.confidence
ORDER BY r.confidence DESC

Wiki Generation

Generate LLM-powered documentation from your knowledge graph:

# Requires an LLM API key (OPENAI_API_KEY, etc.)
gitnexus wiki

# Use a custom model or provider (default model: minimax/minimax-m2.5)
gitnexus wiki --model gpt-4o
gitnexus wiki --base-url https://api.anthropic.com/v1

# Force full regeneration
gitnexus wiki --force

# Increase the timeout or retries for large codebases or slow LLM providers
gitnexus wiki --timeout <seconds>  # LLM request timeout in seconds (default: disabled)
gitnexus wiki --retries <n>        # Max LLM retry attempts per request (default: 3)

# Change the output language
gitnexus wiki --lang <lang>  # e.g. english, chinese, spanish, japanese

The wiki generator reads the indexed graph structure, groups files into modules via LLM, generates per-module documentation pages, and creates an overview page — all with cross-references to the knowledge graph.

Web UI (browser-based)

A client-side graph explorer and AI chat — your code never leaves your machine.

Try it now: gitnexus.vercel.app — run npx gitnexus@latest serve locally and the page auto-connects to your local backend.

The web UI uses the same indexing pipeline as the CLI but runs entirely in WebAssembly (Tree-sitter WASM, LadybugDB WASM, in-browser embeddings). It's great for quick exploration but limited by browser memory for larger repos.

Local Backend Mode: run gitnexus serve and open the web UI — it auto-detects the server and shows all your indexed repos, with full AI chat support. No re-upload, no re-index. The agent's tools (Cypher queries, search, code navigation) route through the backend HTTP API automatically.

Run the frontend locally

git clone https://github.com/abhigyanpatwari/gitnexus.git
cd gitnexus/gitnexus-shared && npm install && npm run build
cd ../gitnexus-web && npm install
npm run dev
# Then in another terminal, start the backend the frontend connects to:
npx gitnexus@latest serve

Docker

docker compose up -d

This starts the server on http://localhost:4747 and the web UI on http://localhost:4173. The UI auto-detects the server because the browser runs on the host and reaches the container via the mapped port.

The official setup ships two signed images, published identically to GitHub Container Registry (GHCR) and Docker Hub — same build, same digest, same Cosign signature:

Purpose	GHCR (default in docker-compose.yaml)	Docker Hub mirror
CLI / gitnexus serve backend (HTTP API on port 4747, MCP, indexer)	ghcr.io/abhigyanpatwari/gitnexus:latest	akonlabs/gitnexus:latest
Static web UI (port 4173)	ghcr.io/abhigyanpatwari/gitnexus-web:latest	akonlabs/gitnexus-web:latest

A named volume (gitnexus-data) persists the global registry, indexes, and cloned repos at /data/gitnexus inside the server container. To make repos on your host machine indexable, set WORKSPACE_DIR before bringing the stack up:

WORKSPACE_DIR=$HOME/code docker compose up -d
# Inside the server container the directory is mounted read-only at /workspace.
docker compose exec gitnexus-server gitnexus index /workspace/my-repo

Heads-up — image rename. Earlier releases published the web UI under ghcr.io/abhigyanpatwari/gitnexus. That slug now hosts the CLI/server image and the UI moved to ghcr.io/abhigyanpatwari/gitnexus-web. Previous tags remain pullable, but new versions are only published under the new slugs — update your docker run / compose files (or just adopt the bundled compose).

Direct docker run & env file

# Server
docker run --rm -d \
  --name gitnexus-server \
  -p 4747:4747 \
  -v gitnexus-data:/data/gitnexus \
  ghcr.io/abhigyanpatwari/gitnexus:latest

# Web UI
docker run --rm -d \
  --name gitnexus-web \
  -p 4173:4173 \
  ghcr.io/abhigyanpatwari/gitnexus-web:latest

Optional env file (override image tags, container names, ports, workspace dir):

cp .env.example .env
docker compose --env-file .env up -d

Files:

• Dockerfile.web — builds gitnexus-shared and gitnexus-web, then serves the production frontend.
• Dockerfile.cli — builds the CLI/server (with its native deps) and runs gitnexus serve --host 0.0.0.0.
• docker-compose.yaml — starts both signed images side by side.
• .env.example — overrides for image names, container names, ports, and the workspace mount.

Versioning & supply-chain protection (Cosign signatures, provenance, Kubernetes admission policy)

The Docker images are version-locked to the npm package:

• Stable images are only published from vX.Y.Z git tags (via docker.yml triggered directly by the tag push), and the workflow refuses to build unless the tag exactly matches gitnexus/package.json's version. So ghcr.io/abhigyanpatwari/gitnexus:1.6.2 (and its Docker Hub mirror akonlabs/gitnexus:1.6.2) is byte-for-byte the same release as npm install gitnexus@1.6.2 — no drift, no floating builds from main. Both registries receive the same digest from a single build step, so you can pull from either and the signature verifies identically.
• Release-candidate images (e.g. :1.7.0-rc.1) are published alongside each RC npm release. They are built by publish.yml calling docker.yml as a reusable workflow after the RC tag is created and pushed.
• :latest is auto-promoted only from non-prerelease tags by the Docker metadata action, so it always points at a real, npm-published version.

Both images are signed with Cosign keyless signing using the workflow's GitHub OIDC identity, and shipped with build provenance and SBOM attestations. This is your protection against supply-chain attacks: even if an attacker republishes a same-named image elsewhere (or somehow pushes to a typo-squatted registry), they cannot forge a Cosign signature tied to abhigyanpatwari/GitNexus's docker.yml. Always verify before pulling into sensitive environments.

Stable releases — signed from the v* tag ref:

cosign verify ghcr.io/abhigyanpatwari/gitnexus:1.6.2 \
  --certificate-identity-regexp '^https://github\.com/abhigyanpatwari/GitNexus/\.github/workflows/docker\.yml@refs/tags/v[0-9]+\.[0-9]+\.[0-9]+(-[a-zA-Z0-9.]+)?$' \
  --certificate-oidc-issuer https://token.actions.githubusercontent.com

# Same signature verifies the Docker Hub mirror (identical digest):
cosign verify docker.io/akonlabs/gitnexus:1.6.2 \
  --certificate-identity-regexp '^https://github\.com/abhigyanpatwari/GitNexus/\.github/workflows/docker\.yml@refs/tags/v[0-9]+\.[0-9]+\.[0-9]+(-[a-zA-Z0-9.]+)?$' \
  --certificate-oidc-issuer https://token.actions.githubusercontent.com

The regex pins the certificate identity to this repo's docker.yml workflow run from a v* tag — rejecting unsigned images, images signed by other workflows, and images signed from unprotected refs. It is identical for both registries because both sets of tags were signed at the same digest in one workflow run.

Release candidates — signed from refs/heads/main (the caller's ref when publish.yml invokes docker.yml as a reusable workflow):

cosign verify ghcr.io/abhigyanpatwari/gitnexus:1.7.0-rc.1 \
  --certificate-identity 'https://github.com/abhigyanpatwari/GitNexus/.github/workflows/docker.yml@refs/heads/main' \
  --certificate-oidc-issuer https://token.actions.githubusercontent.com

You can also inspect the build provenance and SBOM:

cosign download attestation ghcr.io/abhigyanpatwari/gitnexus:1.6.2 \
  --predicate-type https://slsa.dev/provenance/v1

Kubernetes: enforce signatures at admission. Ship the bundled ClusterImagePolicy so the Sigstore policy-controller rejects any GitNexus pod whose image is not signed by this repo's docker.yml running from a vX.Y.Z tag — the same identity the cosign verify snippet above pins.

# 1. Install the controller (one-time, cluster-wide)
helm repo add sigstore https://sigstore.github.io/helm-charts && helm repo update
helm install policy-controller -n cosign-system --create-namespace \
  sigstore/policy-controller

# 2. Opt your namespace in
kubectl label namespace <your-ns> policy.sigstore.dev/include=true

# 3. Apply the policy
kubectl apply -f deploy/kubernetes/cluster-image-policy.yaml

After this, attempting to deploy an unsigned image — or one signed by anything other than abhigyanpatwari/GitNexus's docker.yml at a v* tag — fails the admission webhook before a pod is ever created. This turns the verifiable signature into an enforced policy, which is the supply-chain control most clusters actually need.

Enterprise

GitNexus is available as an enterprise offering — fully managed SaaS or self-hosted deployment. Commercial use of the OSS version is also available with proper licensing.

Enterprise includes:

• PR Review — automated blast radius analysis on pull requests
• Auto-updating Code Wiki — always up-to-date documentation (Code Wiki is also available in OSS)
• Auto-reindexing — knowledge graph stays fresh automatically
• Multi-repo support — unified graph across repositories
• OCaml support — additional language coverage
• Priority feature/language support — request new languages or features

Upcoming: auto regression forensics · end-to-end test generation

👉 Learn more at akonlabs.com — for commercial licensing or enterprise inquiries, ping us on Discord or email founders@akonlabs.com

Community Integrations

Built by the community — not officially maintained, but worth checking out.

Project	Author	Description
pi-gitnexus	@tintinweb	GitNexus plugin for pi — pi install npm:pi-gitnexus
gitnexus-stable-ops	@ShunsukeHayashi	Stable ops & deployment workflows (Miyabi ecosystem)
KiloCode MCP workflow	@oktanishq	Guide to connect GitNexus MCP to Kilo Code and verify tools.

Have a project built on GitNexus? Open a PR to add it here!

Roadmap

Actively building:

• LLM Cluster Enrichment — semantic cluster names via LLM API
• AST Decorator Detection — parse @Controller, @Get, etc.
• Incremental Indexing — only re-index changed files

Recently completed:

• Constructor-Inferred Type Resolution, self/this Receiver Mapping
• Wiki Generation, Multi-File Rename, Git-Diff Impact Analysis
• Process-Grouped Search, 360-Degree Context, Claude Code Hooks
• Multi-Repo MCP, Zero-Config Setup, 14 Language Support
• Community Detection, Process Detection, Confidence Scoring
• Hybrid Search, Vector Index

Development

• ARCHITECTURE.md — packages, index → graph → MCP flow, where to change code
• RUNBOOK.md — analyze, embeddings, stale index, MCP recovery, CI snippets
• GUARDRAILS.md — safety rules and operational "Signs" for contributors and agents
• CONTRIBUTING.md — license, setup, commits, and pull requests
• TESTING.md — test commands for gitnexus and gitnexus-web

Tech Stack

Layer	CLI	Web
Runtime	Node.js (native)	Browser (WASM)
Parsing	Tree-sitter native bindings	Tree-sitter WASM
Database	LadybugDB native	LadybugDB WASM
Embeddings	HuggingFace transformers.js (GPU/CPU)	transformers.js (WebGPU/WASM)
Search	BM25 + semantic + RRF	BM25 + semantic + RRF
Agent Interface	MCP (stdio)	LangChain ReAct agent
Visualization	—	Sigma.js + Graphology (WebGL)
Frontend	—	React 18, TypeScript, Vite, Tailwind v4
Clustering	Graphology	Graphology
Concurrency	Worker threads + async	Web Workers + Comlink

Security & Privacy

• CLI: everything runs locally on your machine. No network calls. Index stored in .gitnexus/ (gitignored). Global registry at ~/.gitnexus/ stores only paths and metadata.
• Web: everything runs in your browser. No code uploaded to any server. API keys stored in localStorage only.
• Open source — audit the code yourself.

Star History

Acknowledgments

• Tree-sitter — AST parsing
• LadybugDB — embedded graph database with vector support (formerly KuzuDB)
• Sigma.js — WebGL graph rendering
• transformers.js — browser ML
• Graphology — graph data structures
• MCP — Model Context Protocol