# TopoChunker: Topology-Aware Agentic Document Chunking Framework

arXiv: https://arxiv.org/abs/2603.18409 · HTML: https://mlsanity.com/paper/2603.18409/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Placed in Multimodal RAG, one of 15 directions in Retrieval-augmented generation.
- Builds on 9 of its 14 references that are in the map.
- First posted on arXiv 19 Mar 2026.

## Placed in

- Retrieval-augmented generation / [Multimodal RAG](https://mlsanity.com/rag/multimodal-rag/)
- LLM agents and tool use / [Web, search, and research agents](https://mlsanity.com/agents/web-search-and-research-agents/)

## Builds on (most cited first, 9 of 9)

- [ReAct: Synergizing Reasoning and Acting in Language Models](https://mlsanity.com/paper/2210.03629/) (2022)
- [Lost in the Middle: How Language Models Use Long Contexts](https://mlsanity.com/paper/2307.03172/) (2023)
- [C-Pack: Packed Resources For General Chinese Embeddings](https://mlsanity.com/paper/2309.07597/) (2023)
- [MinerU: An Open-Source Solution for Precise Document Content Extraction](https://mlsanity.com/paper/2409.18839/) (2024)
- [Dense X Retrieval: What Retrieval Granularity Should We Use?](https://mlsanity.com/paper/2312.06648/) (2023)
- [Late Chunking: Contextual Chunk Embeddings Using Long-Context Embedding Models](https://mlsanity.com/paper/2409.04701/) (2024)
- [LumberChunker: Long-Form Narrative Document Segmentation](https://mlsanity.com/paper/2406.17526/) (2024)
- [Mix-of-Granularity: Optimize the Chunking Granularity for Retrieval-Augmented Generation](https://mlsanity.com/paper/2406.00456/) (2024)
- [MoC: Mixtures of Text Chunking Learners for Retrieval-Augmented Generation System](https://mlsanity.com/paper/2503.09600/) (2025)

## Abstract (arXiv)

Current document chunking methods for Retrieval-Augmented Generation (RAG) typically linearize text. This forced linearization strips away intrinsic topological hierarchies, creating ``semantic fragmentation'' that degrades downstream retrieval quality. In this paper, we propose TopoChunker, an agentic framework that maps heterogeneous documents onto a Structured Intermediate Representation (SIR) to explicitly preserve cross-segment dependencies. To balance structural fidelity with computational cost, TopoChunker employs a dual-agent architecture. An Inspector Agent dynamically routes documents through cost-optimized extraction paths, while a Refiner Agent performs capacity auditing and topological context disambiguation to reconstruct hierarchical lineage. Evaluated on unstructured narratives (GutenQA) and complex reports (GovReport), TopoChunker demonstrates state-of-the-art performance. It outperforms the strongest LLM-based baseline by 8.0% in absolute generation accuracy and achieves an 83.26% Recall@3, while simultaneously reducing token overhead by 23.5%, offering a scalable approach for structure-aware RAG.