Supplementary information for "iAODE for Benchmarking and Continuum Modeling of Single-Cell Chromatin Accessibility"

This supplementary information file contains additional figures and detailed numerical results supporting the main text, based on single-cell Assay for Transposase-Accessible Chromatin using sequencing (scATAC-seq) and single-cell RNA sequencing (scRNA-seq) datasets. Supplementary Figures 1--5 present additional visual analyses (including simulated-topology continuity responses, ablation impacts on embedding quality, clustering/coupling benchmarks, RNA two-component variant performance, and sensitivity to hyperparameters/encoders). Supplementary Tables 1--13 report the corresponding numerical results, including pairwise differences and statistical significance across components, baselines, and hyperparameter settings.