# SeaDAG: Semi-autoregressive Diffusion for Conditional Directed Acyclic Graph Generation

arXiv: https://arxiv.org/abs/2410.16119 · HTML: https://mlsanity.com/paper/2410.16119/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Placed in Flow matching, time series and science, one of 14 directions in Diffusion models.
- Builds on 33 of its 50 references that are in the map.
- First posted on arXiv 21 Oct 2024.

## Placed in

- Diffusion models / [Flow matching, time series and science](https://mlsanity.com/diffusion/flow-matching-time-series-and-science/)

## Builds on (most cited first, 30 of 33)

- [Diffusion Models Beat GANs on Image Synthesis](https://mlsanity.com/paper/2105.05233/) (2021)
- [Improved Denoising Diffusion Probabilistic Models](https://mlsanity.com/paper/2102.09672/) (2021)
- [DiffWave: A Versatile Diffusion Model for Audio Synthesis](https://mlsanity.com/paper/2009.09761/) (2020)
- [MoleculeNet: A Benchmark for Molecular Machine Learning](https://mlsanity.com/paper/1703.00564/) (2017)
- [Equivariant Diffusion for Molecule Generation in 3D](https://mlsanity.com/paper/2203.17003/) (2022)
- [A Generalization of Transformer Networks to Graphs](https://mlsanity.com/paper/2012.09699/) (2020)
- [Junction Tree Variational Autoencoder for Molecular Graph Generation](https://mlsanity.com/paper/1802.04364/) (2018)
- [DiGress: Discrete Denoising diffusion for graph generation](https://mlsanity.com/paper/2209.14734/) (2022)
- [GraphRNN: Generating Realistic Graphs with Deep Auto-regressive Models](https://mlsanity.com/paper/1802.08773/) (2018)
- [Graph Convolutional Policy Network for Goal-Directed Molecular Graph Generation](https://mlsanity.com/paper/1806.02473/) (2018)
- [GraphAF: a Flow-based Autoregressive Model for Molecular Graph Generation](https://mlsanity.com/paper/2001.09382/) (2020)
- [FreeDoM: Training-Free Energy-Guided Conditional Diffusion Model](https://mlsanity.com/paper/2303.09833/) (2023)
- [Score-based Generative Modeling of Graphs via the System of Stochastic Differential Equations](https://mlsanity.com/paper/2202.02514/) (2022)
- [Molecular Sets (MOSES): A Benchmarking Platform for Molecular Generation Models](https://mlsanity.com/paper/1811.12823/) (2018)
- [Permutation Invariant Graph Generation via Score-Based Generative Modeling](https://mlsanity.com/paper/2003.00638/) (2020)
- [ChemRL-GEM: Geometry Enhanced Molecular Representation Learning for Property Prediction](https://mlsanity.com/paper/2106.06130/) (2021)
- [MoFlow: An Invertible Flow Model for Generating Molecular Graphs](https://mlsanity.com/paper/2006.10137/) (2020)
- [GraphDF: A Discrete Flow Model for Molecular Graph Generation](https://mlsanity.com/paper/2102.01189/) (2021)
- [ChipNeMo: Domain-Adapted LLMs for Chip Design](https://mlsanity.com/paper/2311.00176/) (2023)
- [AR-Diffusion: Auto-Regressive Diffusion Model for Text Generation](https://mlsanity.com/paper/2305.09515/) (2023)
- [Objective-Reinforced Generative Adversarial Networks (ORGAN) for Sequence Generation Models](https://mlsanity.com/paper/1705.10843/) (2017)
- [BetterV: Controlled Verilog Generation with Discriminative Guidance](https://mlsanity.com/paper/2402.03375/) (2024)
- [SPECTRE: Spectral Conditioning Helps to Overcome the Expressivity Limits of One-shot Graph Generators](https://mlsanity.com/paper/2204.01613/) (2022)
- [GraphEBM: Molecular Graph Generation with Energy-Based Models](https://mlsanity.com/paper/2102.00546/) (2021)
- [Autoregressive Diffusion Model for Graph Generation](https://mlsanity.com/paper/2307.08849/) (2023)
- [MolecularRNN: Generating realistic molecular graphs with optimized properties](https://mlsanity.com/paper/1905.13372/) (2019)
- [DeepGate: Learning Neural Representations of Logic Gates](https://mlsanity.com/paper/2111.14616/) (2021)
- [Top-N: Equivariant set and graph generation without exchangeability](https://mlsanity.com/paper/2110.02096/) (2021)
- [SwinGNN: Rethinking Permutation Invariance in Diffusion Models for Graph Generation](https://mlsanity.com/paper/2307.01646/) (2023)
- [Pard: Permutation-Invariant Autoregressive Diffusion for Graph Generation](https://mlsanity.com/paper/2402.03687/) (2024)

## Built on by (most cited first, 1 of 1)

- [Architect of the Bits World: Masked Autoregressive Modeling for Circuit Generation Guided by Truth Table](https://mlsanity.com/paper/2502.12751/) (2025)

## Abstract (arXiv)

We introduce SeaDAG, a semi-autoregressive diffusion model for conditional generation of Directed Acyclic Graphs (DAGs). Considering their inherent layer-wise structure, we simulate layer-wise autoregressive generation by designing different denoising speed for different layers. Unlike conventional autoregressive generation that lacks a global graph structure view, our method maintains a complete graph structure at each diffusion step, enabling operations such as property control that require the full graph structure. Leveraging this capability, we evaluate the DAG properties during training by employing a graph property decoder. We explicitly train the model to learn graph conditioning with a condition loss, which enhances the diffusion model's capacity to generate graphs that are both realistic and aligned with specified properties. We evaluate our method on two representative conditional DAG generation tasks: (1) circuit generation from truth tables, where precise DAG structures are crucial for realizing circuit functionality, and (2) molecule generation based on quantum properties. Our approach demonstrates promising results, generating high-quality and realistic DAGs that closely align with given conditions.