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- cross_cell_type_generization/L1/Epitheliums/fold0/config.json +25 -0
- cross_cell_type_generization/L1/Epitheliums/fold0/eval_results.json +8 -0
- cross_cell_type_generization/L1/Epitheliums/fold1/checkpoint-1496/trainer_state.json +450 -0
- cross_cell_type_generization/L6/Macrophages/.DS_Store +0 -0
- cross_cell_type_generization/L6/Macrophages/fold0/.DS_Store +0 -0
- cross_cell_type_generization/L6/Macrophages/fold0/all_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold0/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold0/eval_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold1/.DS_Store +0 -0
- cross_cell_type_generization/L6/Macrophages/fold1/all_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold1/checkpoint-1870/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold1/checkpoint-1870/trainer_state.json +560 -0
- cross_cell_type_generization/L6/Macrophages/fold1/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold1/eval_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold2/.DS_Store +0 -0
- cross_cell_type_generization/L6/Macrophages/fold2/all_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold2/checkpoint-1496/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold2/checkpoint-1496/trainer_state.json +450 -0
- cross_cell_type_generization/L6/Macrophages/fold2/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold2/eval_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold3/.DS_Store +0 -0
- cross_cell_type_generization/L6/Macrophages/fold3/all_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold3/checkpoint-1683/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold3/checkpoint-1683/trainer_state.json +508 -0
- cross_cell_type_generization/L6/Macrophages/fold3/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold3/eval_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold4/.DS_Store +0 -0
- cross_cell_type_generization/L6/Macrophages/fold4/all_results.json +8 -0
- cross_cell_type_generization/L6/Macrophages/fold4/checkpoint-1496/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold4/checkpoint-1496/trainer_state.json +450 -0
- cross_cell_type_generization/L6/Macrophages/fold4/config.json +25 -0
- cross_cell_type_generization/L6/Macrophages/fold4/eval_results.json +8 -0
- cross_cell_type_generization/L6/NKs/.DS_Store +0 -0
- cross_cell_type_generization/L6/NKs/fold0/.DS_Store +0 -0
- cross_cell_type_generization/L6/NKs/fold0/all_results.json +8 -0
- cross_cell_type_generization/L6/NKs/fold0/checkpoint-1683/config.json +25 -0
- cross_cell_type_generization/L6/NKs/fold0/checkpoint-1683/trainer_state.json +508 -0
- cross_cell_type_generization/L6/NKs/fold0/config.json +25 -0
- cross_cell_type_generization/L6/NKs/fold0/eval_results.json +8 -0
- cross_cell_type_generization/L6/NKs/fold1/.DS_Store +0 -0
- cross_cell_type_generization/L6/NKs/fold1/all_results.json +8 -0
- cross_cell_type_generization/L6/NKs/fold1/checkpoint-1870/config.json +25 -0
- cross_cell_type_generization/L6/NKs/fold1/checkpoint-1870/trainer_state.json +560 -0
- cross_cell_type_generization/L6/NKs/fold1/config.json +25 -0
- cross_cell_type_generization/L6/NKs/fold1/eval_results.json +8 -0
- cross_cell_type_generization/L6/NKs/fold2/.DS_Store +0 -0
- cross_cell_type_generization/L6/NKs/fold2/all_results.json +8 -0
- cross_cell_type_generization/L6/NKs/fold2/checkpoint-1496/config.json +25 -0
- cross_cell_type_generization/L6/NKs/fold2/checkpoint-1496/trainer_state.json +450 -0
- cross_cell_type_generization/L6/NKs/fold2/config.json +25 -0
cross_cell_type_generization/L1/Epitheliums/fold0/config.json
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{
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"architectures": [
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"BertForSequenceClassification"
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],
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"attention_probs_dropout_prob": 0.02,
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"classifier_dropout": null,
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"hidden_act": "gelu",
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"hidden_dropout_prob": 0.02,
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"hidden_size": 256,
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"initializer_range": 0.02,
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"intermediate_size": 512,
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"layer_norm_eps": 1e-12,
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"max_position_embeddings": 2048,
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"model_type": "bert",
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"num_attention_heads": 4,
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"num_hidden_layers": 1,
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"pad_token_id": 0,
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"position_embedding_type": "absolute",
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"problem_type": "single_label_classification",
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"torch_dtype": "float32",
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"transformers_version": "4.28.0",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 30522
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}
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cross_cell_type_generization/L1/Epitheliums/fold0/eval_results.json
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{
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"test_accuracy": 0.74,
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"test_loss": 0.5750910043716431,
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"test_macro_f1": 0.722501857893544,
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"test_runtime": 2.1461,
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"test_samples_per_second": 419.368,
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"test_steps_per_second": 4.194
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}
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cross_cell_type_generization/L1/Epitheliums/fold1/checkpoint-1496/trainer_state.json
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{
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cross_cell_type_generization/L6/Macrophages/fold0/config.json
ADDED
|
@@ -0,0 +1,25 @@
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| 1 |
+
{
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| 2 |
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"architectures": [
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| 3 |
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"BertForSequenceClassification"
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| 4 |
+
],
|
| 5 |
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"attention_probs_dropout_prob": 0.02,
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| 6 |
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"classifier_dropout": null,
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| 7 |
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"hidden_act": "gelu",
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| 8 |
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"hidden_dropout_prob": 0.02,
|
| 9 |
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"hidden_size": 256,
|
| 10 |
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"initializer_range": 0.02,
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| 11 |
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"intermediate_size": 512,
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| 12 |
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"layer_norm_eps": 1e-12,
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| 13 |
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"max_position_embeddings": 2048,
|
| 14 |
+
"model_type": "bert",
|
| 15 |
+
"num_attention_heads": 4,
|
| 16 |
+
"num_hidden_layers": 6,
|
| 17 |
+
"pad_token_id": 0,
|
| 18 |
+
"position_embedding_type": "absolute",
|
| 19 |
+
"problem_type": "single_label_classification",
|
| 20 |
+
"torch_dtype": "float32",
|
| 21 |
+
"transformers_version": "4.28.0",
|
| 22 |
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"type_vocab_size": 2,
|
| 23 |
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"use_cache": true,
|
| 24 |
+
"vocab_size": 30522
|
| 25 |
+
}
|
cross_cell_type_generization/L6/Macrophages/fold0/eval_results.json
ADDED
|
@@ -0,0 +1,8 @@
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{
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| 2 |
+
"test_accuracy": 0.8311111111111111,
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| 3 |
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"test_loss": 0.3617004156112671,
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| 4 |
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"test_macro_f1": 0.8307425059017416,
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| 5 |
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"test_runtime": 2.9704,
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| 6 |
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"test_samples_per_second": 302.993,
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| 7 |
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"test_steps_per_second": 3.03
|
| 8 |
+
}
|
cross_cell_type_generization/L6/Macrophages/fold1/.DS_Store
ADDED
|
Binary file (6.15 kB). View file
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cross_cell_type_generization/L6/Macrophages/fold1/all_results.json
ADDED
|
@@ -0,0 +1,8 @@
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| 1 |
+
{
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| 2 |
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"test_accuracy": 0.8633333333333333,
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| 3 |
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"test_loss": 0.31940537691116333,
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| 4 |
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"test_macro_f1": 0.8633291150961449,
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| 5 |
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"test_runtime": 3.0956,
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| 6 |
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"test_samples_per_second": 290.731,
|
| 7 |
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"test_steps_per_second": 2.907
|
| 8 |
+
}
|
cross_cell_type_generization/L6/Macrophages/fold1/checkpoint-1870/config.json
ADDED
|
@@ -0,0 +1,25 @@
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| 1 |
+
{
|
| 2 |
+
"architectures": [
|
| 3 |
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"BertForSequenceClassification"
|
| 4 |
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],
|
| 5 |
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"attention_probs_dropout_prob": 0.02,
|
| 6 |
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"classifier_dropout": null,
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| 7 |
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"hidden_act": "gelu",
|
| 8 |
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"hidden_dropout_prob": 0.02,
|
| 9 |
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"hidden_size": 256,
|
| 10 |
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"initializer_range": 0.02,
|
| 11 |
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"intermediate_size": 512,
|
| 12 |
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"layer_norm_eps": 1e-12,
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| 13 |
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"max_position_embeddings": 2048,
|
| 14 |
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"model_type": "bert",
|
| 15 |
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"num_attention_heads": 4,
|
| 16 |
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"num_hidden_layers": 6,
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| 17 |
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"pad_token_id": 0,
|
| 18 |
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"position_embedding_type": "absolute",
|
| 19 |
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"problem_type": "single_label_classification",
|
| 20 |
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"torch_dtype": "float32",
|
| 21 |
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"transformers_version": "4.28.0",
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| 22 |
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"type_vocab_size": 2,
|
| 23 |
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"use_cache": true,
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| 24 |
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"vocab_size": 30522
|
| 25 |
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}
|
cross_cell_type_generization/L6/Macrophages/fold1/checkpoint-1870/trainer_state.json
ADDED
|
@@ -0,0 +1,560 @@
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|
| 1 |
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{
|
| 2 |
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"best_metric": 0.3829525113105774,
|
| 3 |
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"best_model_checkpoint": "/vsphhome/fengguoqing/Geneformer/models/data_diversity/L6/Macrophages/fold1/checkpoint-1496",
|
| 4 |
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"epoch": 10.0,
|
| 5 |
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"global_step": 1870,
|
| 6 |
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"is_hyper_param_search": false,
|
| 7 |
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"is_local_process_zero": true,
|
| 8 |
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"is_world_process_zero": true,
|
| 9 |
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"log_history": [
|
| 10 |
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{
|
| 11 |
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"epoch": 0.13,
|
| 12 |
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"learning_rate": 2.5e-06,
|
| 13 |
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"loss": 0.6951,
|
| 14 |
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"step": 25
|
| 15 |
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},
|
| 16 |
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{
|
| 17 |
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"epoch": 0.27,
|
| 18 |
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"learning_rate": 5e-06,
|
| 19 |
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"loss": 0.6938,
|
| 20 |
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"step": 50
|
| 21 |
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},
|
| 22 |
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{
|
| 23 |
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"epoch": 0.4,
|
| 24 |
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"learning_rate": 7.5e-06,
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| 25 |
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"loss": 0.6933,
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| 26 |
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"step": 75
|
| 27 |
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},
|
| 28 |
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{
|
| 29 |
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"epoch": 0.53,
|
| 30 |
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"learning_rate": 1e-05,
|
| 31 |
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"loss": 0.6931,
|
| 32 |
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"step": 100
|
| 33 |
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|
| 34 |
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{
|
| 35 |
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|
| 36 |
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"learning_rate": 1.25e-05,
|
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cross_cell_type_generization/L6/Macrophages/fold1/config.json
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cross_cell_type_generization/L6/Macrophages/fold1/eval_results.json
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cross_cell_type_generization/L6/Macrophages/fold2/all_results.json
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cross_cell_type_generization/L6/Macrophages/fold2/checkpoint-1496/config.json
ADDED
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cross_cell_type_generization/L6/Macrophages/fold2/config.json
ADDED
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cross_cell_type_generization/L6/Macrophages/fold2/eval_results.json
ADDED
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cross_cell_type_generization/L6/Macrophages/fold3/all_results.json
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|
cross_cell_type_generization/L6/Macrophages/fold3/checkpoint-1683/config.json
ADDED
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@@ -0,0 +1,25 @@
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cross_cell_type_generization/L6/Macrophages/fold3/checkpoint-1683/trainer_state.json
ADDED
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cross_cell_type_generization/L6/Macrophages/fold3/config.json
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cross_cell_type_generization/L6/Macrophages/fold4/checkpoint-1496/config.json
ADDED
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cross_cell_type_generization/L6/Macrophages/fold4/config.json
ADDED
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@@ -0,0 +1,25 @@
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cross_cell_type_generization/L6/Macrophages/fold4/eval_results.json
ADDED
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cross_cell_type_generization/L6/NKs/.DS_Store
ADDED
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cross_cell_type_generization/L6/NKs/fold0/.DS_Store
ADDED
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cross_cell_type_generization/L6/NKs/fold0/all_results.json
ADDED
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|
cross_cell_type_generization/L6/NKs/fold0/checkpoint-1683/config.json
ADDED
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@@ -0,0 +1,25 @@
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cross_cell_type_generization/L6/NKs/fold0/checkpoint-1683/trainer_state.json
ADDED
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@@ -0,0 +1,508 @@
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cross_cell_type_generization/L6/NKs/fold0/config.json
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cross_cell_type_generization/L6/NKs/fold1/all_results.json
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cross_cell_type_generization/L6/NKs/fold1/checkpoint-1870/config.json
ADDED
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cross_cell_type_generization/L6/NKs/fold2/config.json
ADDED
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@@ -0,0 +1,25 @@
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