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@@ -109,3 +109,16 @@ baseline/outputs/gears_from_scratch/figures/evaluation_metrics_use_existing_test
 baseline/outputs/gears_from_scratch/figures/training_history_use_existing_test.png filter=lfs diff=lfs merge=lfs -text
 baseline/outputs/gears_from_scratch/pred_gears_from_scratch_use_existing_test.h5ad filter=lfs diff=lfs merge=lfs -text
 baseline/outputs/gears_from_scratch/real_gears_from_scratch_use_existing_test.h5ad filter=lfs diff=lfs merge=lfs -text
+baseline/outputs/cellot_ot_baseline/figures/bio_A_gene_mean_calibration_use_existing_test.png filter=lfs diff=lfs merge=lfs -text
+baseline/outputs/cellot_ot_baseline/figures/bio_B_MA_plot_use_existing_test.png filter=lfs diff=lfs merge=lfs -text
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+baseline/outputs/cellot_ot_baseline/figures/bio_K_topvar_gene_scatters_use_existing_test.png filter=lfs diff=lfs merge=lfs -text
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+baseline/outputs/cellot_ot_baseline/real_cellot_ot_baseline_use_existing_test.h5ad filter=lfs diff=lfs merge=lfs -text

baseline/outputs/cellot_ot_baseline/aggregate_cellot_ot_baseline_use_existing_test.csv

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baseline/outputs/cellot_ot_baseline/cellot_ot_baseline_model.pt

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+oid sha256:8529c08923ee446addedf075efd4bf4fbd82344762f28cde8042e27254779920
+size 24041641

baseline/outputs/cellot_ot_baseline/config_cellot_ot_baseline_use_existing_test.json

@@ -0,0 +1,33 @@
+{
+  "name": "cellot_ot_baseline",
+  "input_path": "/root/final/data/processed/scPerturb/prediction_ready/replogle_k562_essential_single_gene_prediction_ready_full.h5ad",
+  "split_strategy": "use_existing",
+  "eval_split": "test",
+  "random_seed": 42,
+  "latent_dim": 64,
+  "hidden_dim": 256,
+  "condition_dim": 128,
+  "dropout": 0.1,
+  "num_transport_blocks": 4,
+  "batch_size": 128,
+  "epochs": 20,
+  "steps_per_epoch": 200,
+  "validation_steps": 32,
+  "learning_rate": 0.001,
+  "weight_decay": 1e-05,
+  "recon_weight": 1.0,
+  "map_weight": 1.0,
+  "latent_mmd_weight": 0.1,
+  "expression_mmd_weight": 0.1,
+  "mean_weight": 1.0,
+  "displacement_reg": 0.01,
+  "sinkhorn_epsilon": 0.5,
+  "sinkhorn_iters": 30,
+  "train_frac": 0.8,
+  "val_frac": 0.1,
+  "n_train_conditions": 1645,
+  "n_eval_conditions": 205,
+  "n_unseen_eval_conditions": 205,
+  "model_path": "/root/final/baseline/outputs/cellot_ot_baseline/cellot_ot_baseline_model.pt",
+  "note": "CellOT-inspired direct neural OT baseline with Sinkhorn barycentric supervision; not an exact reproduction of official dual-ICNN CellOT training"
+}

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