Simulated RNA circuits

Datasets used to train CVAE models. Sequence-sampled dataset:- Dataset: 2024_12_05_210221__ensemble_config- Configuration file: 2024_12_05_210221__tabulated_mutation_info Parameter-sampled dataset:- Dataset: 2025_02_11__13_56_51__tabulated_mutation_info- Configuration file: 2025_02_11__13_56_51__config Pair of circuits from UMAP:- Concentrations: ruggedness_umap_pair_ys.npy- Time-steps: ruggedness_umap_pair_ts.npy Model trained on 'adaptation':- Dynamics metric: model1_adaptation_analytics.json- Generated circuit interactions: model1_adaptation_generated_circuits.npy - Prompts: - model1_adaptation_sampled_cond_14.npy - model1_adaptation_sampled_cond_56.npy - model1_adaptation_sampled_cond_112.npy Model trained on ['adaptation', 'ruggedness']:- Dynamics metrics: model2_adaptation_ruggedness_analytics.json- Generated circuit interactions: model2_adaptation_ruggedness_generated_circuits.npy- Prompts: model2_adaptation_ruggedness_sampled_cond.npy --> Simulated using IntaRNA 2.0 and JAX solvers for dynamics