{
  "method_runtimes_sec": {
    "correlation": {
      "layer_a_chipatlas_sec": 19.242124,
      "layer_b_curated_sec": 0.871538,
      "layer_c_canonical_sec": 0.197274,
      "layer_d_k562_sec": 0.694737,
      "total_sec": 21.005673
    },
    "deepsem": {
      "layer_a_chipatlas_sec": 1.377161,
      "layer_b_curated_sec": 0.08245,
      "layer_c_canonical_sec": 0.015056,
      "layer_d_k562_sec": 0.074125,
      "total_sec": 1.548792
    },
    "geneformer_attn": {
      "layer_a_chipatlas_sec": 8.31889,
      "layer_b_curated_sec": 0.423055,
      "layer_c_canonical_sec": 0.085655,
      "layer_d_k562_sec": 0.445306,
      "total_sec": 9.272906
    },
    "genie3": {
      "layer_a_chipatlas_sec": 17.806579,
      "layer_b_curated_sec": 0.798014,
      "layer_c_canonical_sec": 0.180552,
      "layer_d_k562_sec": 0.650593,
      "total_sec": 19.435738
    },
    "grnboost2": {
      "layer_a_chipatlas_sec": 14.034096,
      "layer_b_curated_sec": 0.646535,
      "layer_c_canonical_sec": 0.142509,
      "layer_d_k562_sec": 0.622533,
      "total_sec": 15.445673
    },
    "inferelator": {
      "layer_a_chipatlas_sec": 5.433204,
      "layer_b_curated_sec": 0.296585,
      "layer_c_canonical_sec": 0.058108,
      "layer_d_k562_sec": 0.50169,
      "total_sec": 6.289587
    },
    "random_null": {
      "layer_a_chipatlas_sec": 13.758648,
      "layer_b_curated_sec": 0.728264,
      "layer_c_canonical_sec": 0.154618,
      "layer_d_k562_sec": 0.66293,
      "total_sec": 15.30446
    },
    "scenic": {
      "layer_a_chipatlas_sec": 0.528207,
      "layer_b_curated_sec": 0.041938,
      "layer_c_canonical_sec": 0.006377,
      "layer_d_k562_sec": 0.073127,
      "total_sec": 0.649649
    },
    "scnet": {
      "layer_a_chipatlas_sec": 12.46582,
      "layer_b_curated_sec": 0.73204,
      "layer_c_canonical_sec": 0.137382,
      "layer_d_k562_sec": 0.689521,
      "total_sec": 14.024763
    },
    "scregnet_geneformer": {
      "layer_a_chipatlas_sec": 12.422738,
      "layer_b_curated_sec": 0.718298,
      "layer_c_canonical_sec": 0.137697,
      "layer_d_k562_sec": 0.68274,
      "total_sec": 13.961473
    },
    "scregnet_hgfb": {
      "layer_a_chipatlas_sec": 12.635231,
      "layer_b_curated_sec": 0.715656,
      "layer_c_canonical_sec": 0.137819,
      "layer_d_k562_sec": 0.682455,
      "total_sec": 14.171161
    }
  },
  "total_experiment_sec": 143.088647,
  "notes": "Method runtime totals sum Layer A/B/C/D times only; all methods were evaluated sequentially on the same hardware."
}