Christina Theodoris
commited on
Commit
·
7cf49a3
1
Parent(s):
d319fef
add V2 models
Browse files- Geneformer-V1-10M/config.json +23 -0
- Geneformer-V1-10M/model.safetensors +3 -0
- Geneformer-V1-10M/pytorch_model.bin +3 -0
- Geneformer-V1-10M/training_args.bin +3 -0
- Geneformer-V2-104M/config.json +24 -0
- Geneformer-V2-104M/generation_config.json +5 -0
- Geneformer-V2-104M/model.safetensors +3 -0
- Geneformer-V2-104M/training_args.bin +3 -0
- Geneformer-V2-104M_CLcancer/config.json +25 -0
- Geneformer-V2-104M_CLcancer/generation_config.json +5 -0
- Geneformer-V2-104M_CLcancer/model.safetensors +3 -0
- Geneformer-V2-104M_CLcancer/training_args.bin +3 -0
- Geneformer-V2-316M/config.json +24 -0
- Geneformer-V2-316M/generation_config.json +5 -0
- Geneformer-V2-316M/model.safetensors +3 -0
- Geneformer-V2-316M/training_args.bin +3 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/config.json +35 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/optimizer.pt +3 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/pytorch_model.bin +3 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/rng_state.pth +3 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/scheduler.pt +3 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/trainer_state.json +150 -0
- fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/training_args.bin +3 -0
- geneformer/ensembl_mapping_dict_gc104M.pkl +3 -0
- geneformer/gene_median_dictionary_gc104M.pkl +3 -0
- geneformer/gene_name_id_dict_gc104M.pkl +3 -0
- geneformer/token_dictionary_gc104M.pkl +3 -0
Geneformer-V1-10M/config.json
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{
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"architectures": [
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"BertForMaskedLM"
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],
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"attention_probs_dropout_prob": 0.02,
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"gradient_checkpointing": false,
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"hidden_act": "relu",
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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": 6,
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"pad_token_id": 0,
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"position_embedding_type": "absolute",
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"transformers_version": "4.6.0",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 25426
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}
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Geneformer-V1-10M/model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:a5e33a757431643b3697de7ef6127950cdc49e06e58d4266b3a3ab191b683f14
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size 41183536
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Geneformer-V1-10M/pytorch_model.bin
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version https://git-lfs.github.com/spec/v1
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oid sha256:8d860e2125884475dd42bc2cd9a0e60c60808a7351241e08f2154931ffc142da
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size 41216562
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Geneformer-V1-10M/training_args.bin
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version https://git-lfs.github.com/spec/v1
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oid sha256:f0ec3459454205174c9d2e4d6c6930f6b0fbf3364fc03a6f4d99c4d3add2012b
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size 2607
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Geneformer-V2-104M/config.json
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{
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"architectures": [
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"BertForMaskedLM"
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],
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"attention_probs_dropout_prob": 0.1,
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"classifier_dropout": null,
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"hidden_act": "relu",
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"hidden_dropout_prob": 0.1,
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"hidden_size": 768,
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"initializer_range": 0.02,
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"intermediate_size": 3072,
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"layer_norm_eps": 1e-12,
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"max_position_embeddings": 4096,
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"model_type": "bert",
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"num_attention_heads": 12,
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"num_hidden_layers": 12,
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"pad_token_id": 0,
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"position_embedding_type": "absolute",
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"torch_dtype": "float32",
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"transformers_version": "4.44.2",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 20275
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}
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Geneformer-V2-104M/generation_config.json
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{
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"_from_model_config": true,
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"pad_token_id": 0,
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"transformers_version": "4.44.2"
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}
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Geneformer-V2-104M/model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:fff5cba29ddd8792991fa77b4872246fbe548a178cebda3775cdc72b67780e7f
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size 417571156
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Geneformer-V2-104M/training_args.bin
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version https://git-lfs.github.com/spec/v1
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oid sha256:0d8ddd9e4f35b5fe23a3adaae03aa4480705ca82eed546a488f970adb3752d9d
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size 5496
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Geneformer-V2-104M_CLcancer/config.json
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{
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"_name_or_path": "/gladstone/theodoris/lab/ctheodoris/gf-104m/models/241127_143148_geneformer_94M_L12_emb768_SL4096_E3_B18_LR0.0002_LScosine_WR0.007_Oadamw_DS13/models",
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"architectures": [
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"BertForMaskedLM"
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],
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"attention_probs_dropout_prob": 0.1,
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"classifier_dropout": null,
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"hidden_act": "relu",
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"hidden_dropout_prob": 0.1,
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"hidden_size": 768,
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"initializer_range": 0.02,
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"intermediate_size": 3072,
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"layer_norm_eps": 1e-12,
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"max_position_embeddings": 4096,
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"model_type": "bert",
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"num_attention_heads": 12,
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"num_hidden_layers": 12,
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"pad_token_id": 0,
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"position_embedding_type": "absolute",
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"torch_dtype": "float32",
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"transformers_version": "4.37.1",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 20275
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}
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Geneformer-V2-104M_CLcancer/generation_config.json
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{
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"_from_model_config": true,
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"pad_token_id": 0,
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"transformers_version": "4.37.1"
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}
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Geneformer-V2-104M_CLcancer/model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:827738139bfed4bafa9d1f3df7c6146da2e3b85f7225076adc32c6eda0ba4357
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size 417571156
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Geneformer-V2-104M_CLcancer/training_args.bin
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version https://git-lfs.github.com/spec/v1
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oid sha256:8cf8ce52b498253adc6df53197a99821fa145c19b8ae5eeb8d15be76b8b7ddb3
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size 4984
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Geneformer-V2-316M/config.json
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{
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"architectures": [
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"BertForMaskedLM"
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],
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"attention_probs_dropout_prob": 0.1,
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"classifier_dropout": null,
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"hidden_act": "relu",
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"hidden_dropout_prob": 0.1,
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"hidden_size": 1152,
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"initializer_range": 0.02,
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"intermediate_size": 4608,
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"layer_norm_eps": 1e-12,
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"max_position_embeddings": 4096,
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"model_type": "bert",
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"num_attention_heads": 18,
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"num_hidden_layers": 18,
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"pad_token_id": 0,
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"position_embedding_type": "absolute",
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"torch_dtype": "float32",
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"transformers_version": "4.44.2",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 20275
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}
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Geneformer-V2-316M/generation_config.json
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{
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"_from_model_config": true,
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"pad_token_id": 0,
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"transformers_version": "4.44.2"
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}
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Geneformer-V2-316M/model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:965ceccea81953d362081ef3843560a0e4fef88d396c28017881f1e94b1246f3
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size 1265455076
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Geneformer-V2-316M/training_args.bin
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version https://git-lfs.github.com/spec/v1
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oid sha256:e45150f9a4ca34cb4e91ce79f65f3d99d9d66df9f66a37517a352d291008e0b8
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size 5432
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fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/config.json
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{
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"_name_or_path": "/n/home01/ctheodoris/models/210602_111318_geneformer_27M_L6_emb256_SL2048_E3_B12_LR0.001_LSlinear_WU10000_Oadamw_DS12/models/",
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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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"gradient_checkpointing": false,
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"hidden_act": "relu",
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"hidden_dropout_prob": 0.02,
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"hidden_size": 256,
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"id2label": {
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"0": "LABEL_0",
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"1": "LABEL_1",
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"2": "LABEL_2"
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},
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"initializer_range": 0.02,
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"intermediate_size": 512,
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"label2id": {
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"LABEL_0": 0,
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"LABEL_1": 1,
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"LABEL_2": 2
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},
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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": 6,
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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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"transformers_version": "4.6.0",
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"type_vocab_size": 2,
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"use_cache": true,
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"vocab_size": 25426
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}
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fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/optimizer.pt
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version https://git-lfs.github.com/spec/v1
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size 73720721
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fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/pytorch_model.bin
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version https://git-lfs.github.com/spec/v1
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size 41115113
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fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/rng_state.pth
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version https://git-lfs.github.com/spec/v1
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size 14657
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fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/scheduler.pt
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version https://git-lfs.github.com/spec/v1
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size 623
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fine_tuned_models/Geneformer-V1-10M_CellClassifier_cardiomyopathies_220224/trainer_state.json
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