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@@ -33,3 +33,69 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.zip filter=lfs diff=lfs merge=lfs -text
 *.zst filter=lfs diff=lfs merge=lfs -text
 *tfevents* filter=lfs diff=lfs merge=lfs -text
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.pybiomart.sqlite

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example_paper.pdf

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output/deep_benchmark_v2/results/cross_dataset_consistency.json

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+{
+  "analytical": [
+    {
+      "dataset_a": "dentate_gyrus",
+      "dataset_b": "pancreas",
+      "n_shared_genes": 4915,
+      "spearman_r": 0.1915326245338796,
+      "pearson_r": 0.1037985123384687
+    }
+  ],
+  "deepptr": [
+    {
+      "dataset_a": "dentate_gyrus",
+      "dataset_b": "pancreas",
+      "n_shared_genes": 53,
+      "spearman_r": 0.7214965328172875,
+      "pearson_r": 0.6869671266770031
+    }
+  ]
+}

output/dentate_gyrus/results/enrichment_results.json

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+{
+  "ARE": {
+    "label": "ARE",
+    "n_genes_in_set": 5,
+    "n_genes_in_set_unfiltered": 10,
+    "n_genes_background": 4226,
+    "median_gamma_in_set": 0.0,
+    "median_gamma_background": 0.0,
+    "U_statistic": 7020.0,
+    "p_value": 0.9389042423798455
+  },
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+    "n_genes_in_set": 10,
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+    "median_gamma_in_set": 0.5069159865379333,
+    "median_gamma_background": 0.0,
+    "U_statistic": 30052.0,
+    "p_value": 0.002894735150897442
+  }
+}

output/dentate_gyrus/results/halflife_correlation.json

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+{
+  "mouse_reference": {
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+    "spearman_p": 1.2047853969711478e-31,
+    "pearson_r": -0.2230398346726077,
+    "pearson_p": 3.483536317973379e-15,
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+  "human_reference": {
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+    "spearman_p": 4.702463566133197e-42,
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+    "pearson_p": 9.626903685893092e-23,
+    "n_genes": 1126,
+    "n_genes_unfiltered": 4099
+  }
+}

output/dentate_gyrus/results/pt_state_counts.csv

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output/dentate_gyrus/results/pt_state_vs_clusters.csv

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