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- dnabert2_emb/H2AFZ/test_mid_char_lens.npy +3 -0
- dnabert2_emb/H2AFZ/test_mid_metadata.json +12 -0
- dnabert2_emb/H2AFZ/train_mid_metadata.json +12 -0
- dnabert2_emb/H3K27ac/test_mid_char_lens.npy +3 -0
- dnabert2_emb/H3K27ac/val_mid_char_lens.npy +3 -0
- dnabert2_emb/H3K4me3/val_mid_char_lens.npy +3 -0
- dnabert2_emb/enhancers/test_mid_char_lens.npy +3 -0
- dnabert2_emb/enhancers/val_mid_metadata.json +12 -0
- dnabert2_emb/promoter_tata/test_mid_char_lens.npy +3 -0
- dnabert2_emb/promoter_tata/train_mid_char_lens.npy +3 -0
- dnabert2_emb/splice_sites_all/test_mid_char_lens.npy +3 -0
- dnabert2_emb/splice_sites_all/val_mid_char_lens.npy +3 -0
- dnabert2_emb/splice_sites_donors/test_mid_char_lens.npy +3 -0
- dnabert2_emb/splice_sites_donors/val_mid_char_lens.npy +3 -0
- nt_adapters/H2AFZ/test_char_lens.npy +3 -0
- nt_adapters/H2AFZ/test_mid_char_lens.npy +3 -0
- nt_adapters/H2AFZ/train_metadata.json +10 -0
- nt_adapters/H2AFZ/val_char_lens.npy +3 -0
- nt_adapters/H2AFZ/val_mid_char_lens.npy +3 -0
- nt_adapters/H3K27ac/test_mid_char_lens.npy +3 -0
- nt_adapters/H3K27ac/val_char_lens.npy +3 -0
- nt_adapters/H3K27ac/val_metadata.json +10 -0
- nt_adapters/H3K27ac/val_mid_char_lens.npy +3 -0
- nt_adapters/H3K27ac/val_mid_metadata.json +12 -0
- nt_adapters/H3K27me3/test_char_lens.npy +3 -0
- nt_adapters/H3K27me3/train_metadata.json +10 -0
- nt_adapters/H3K27me3/val_metadata.json +10 -0
- nt_adapters/H3K36me3/train_metadata.json +10 -0
- nt_adapters/H3K36me3/val_char_lens.npy +3 -0
- nt_adapters/H3K4me1/test_char_lens.npy +3 -0
- nt_adapters/H3K4me1/test_metadata.json +10 -0
- nt_adapters/H3K4me1/train_char_lens.npy +3 -0
- nt_adapters/H3K4me1/val_metadata.json +10 -0
- nt_adapters/H3K4me2/test_char_lens.npy +3 -0
- nt_adapters/H3K4me2/val_char_lens.npy +3 -0
- nt_adapters/H3K4me3/test_mid_char_lens.npy +3 -0
- nt_adapters/H3K4me3/test_mid_metadata.json +12 -0
- nt_adapters/H3K4me3/val_mid_char_lens.npy +3 -0
- nt_adapters/H3K9ac/test_metadata.json +10 -0
- nt_adapters/H3K9ac/train_metadata.json +10 -0
- nt_adapters/H3K9ac/val_metadata.json +10 -0
- nt_adapters/H4K20me1/test_metadata.json +10 -0
- nt_adapters/H4K20me1/test_mid_char_lens.npy +3 -0
- nt_adapters/H4K20me1/train_char_lens.npy +3 -0
- nt_adapters/H4K20me1/train_metadata.json +10 -0
- nt_adapters/H4K20me1/train_mid_metadata.json +12 -0
- nt_adapters/H4K20me1/val_metadata.json +10 -0
- nt_adapters/H4K20me1/val_mid_metadata.json +12 -0
- nt_adapters/enhancers/test_metadata.json +10 -0
- nt_adapters/enhancers/train_metadata.json +10 -0
dnabert2_emb/H2AFZ/test_mid_char_lens.npy
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dnabert2_emb/H2AFZ/test_mid_metadata.json
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"hidden_size": 768,
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"teacher_checkpoint": "dnabert2-117m-base/zhihan1996/DNABERT-2-117M",
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"cache_key": "d5d733494d6c2ab2b7f9d4e370c9dc84",
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"split": "test",
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"layer_tag": "mid",
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"resolved_layer": 6
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}
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dnabert2_emb/H2AFZ/train_mid_metadata.json
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"num_samples": 27000,
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"hidden_size": 768,
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"token_len": 233,
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"teacher_checkpoint": "dnabert2-117m-base/zhihan1996/DNABERT-2-117M",
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"cache_key": "088d9314926917903c95ee62ef153ad5",
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"split": "train",
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"format": "per_token_fp16",
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"layer_tag": "mid",
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dnabert2_emb/H3K27ac/test_mid_char_lens.npy
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dnabert2_emb/H3K27ac/val_mid_char_lens.npy
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dnabert2_emb/H3K4me3/val_mid_char_lens.npy
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dnabert2_emb/enhancers/test_mid_char_lens.npy
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dnabert2_emb/enhancers/val_mid_metadata.json
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"hidden_size": 768,
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"teacher_checkpoint": "dnabert2-117m-base/zhihan1996/DNABERT-2-117M",
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"resolved_layer": 6
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dnabert2_emb/promoter_tata/test_mid_char_lens.npy
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dnabert2_emb/promoter_tata/train_mid_char_lens.npy
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dnabert2_emb/splice_sites_all/test_mid_char_lens.npy
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dnabert2_emb/splice_sites_all/val_mid_char_lens.npy
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dnabert2_emb/splice_sites_donors/test_mid_char_lens.npy
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dnabert2_emb/splice_sites_donors/val_mid_char_lens.npy
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nt_adapters/H2AFZ/test_char_lens.npy
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nt_adapters/H2AFZ/test_mid_char_lens.npy
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nt_adapters/H2AFZ/train_metadata.json
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"hidden_size": 2560,
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"token_len": 171,
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H2AFZ_finetuned/model-best-epoch7-mcc_score0.5247",
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"cache_key": "d9a86b0b03bf28300daff68f28d885c0",
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"split": "train",
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"format": "per_token_fp16"
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}
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nt_adapters/H2AFZ/val_char_lens.npy
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nt_adapters/H2AFZ/val_mid_char_lens.npy
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nt_adapters/H3K27ac/test_mid_char_lens.npy
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nt_adapters/H3K27ac/val_char_lens.npy
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nt_adapters/H3K27ac/val_metadata.json
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K27ac_finetuned/model-best-epoch3-mcc_score0.5219",
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"split": "val",
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"format": "per_token_fp16"
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}
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nt_adapters/H3K27ac/val_mid_char_lens.npy
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nt_adapters/H3K27ac/val_mid_metadata.json
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K27ac_finetuned/model-best-epoch3-mcc_score0.5219",
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"layer_tag": "mid",
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"resolved_layer": 16
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}
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nt_adapters/H3K27me3/test_char_lens.npy
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nt_adapters/H3K27me3/train_metadata.json
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{
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"hidden_size": 2560,
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"token_len": 171,
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K27me3_finetuned/model-best-epoch6-mcc_score0.6001",
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"cache_key": "2739d0c5c180cf00920096863c9a21fa",
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"split": "train",
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"format": "per_token_fp16"
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}
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nt_adapters/H3K27me3/val_metadata.json
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|
| 7 |
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|
| 8 |
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|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H3K36me3/train_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
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|
| 3 |
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|
| 4 |
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"hidden_size": 2560,
|
| 5 |
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"token_len": 171,
|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K36me3_finetuned/model-best-epoch6-mcc_score0.6866",
|
| 7 |
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"cache_key": "0527d2242b116b8f2318fe74b1a4ffc5",
|
| 8 |
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"split": "train",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H3K36me3/val_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
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|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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version https://git-lfs.github.com/spec/v1
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| 2 |
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|
| 3 |
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size 1026128
|
nt_adapters/H3K4me1/test_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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version https://git-lfs.github.com/spec/v1
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| 2 |
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|
| 3 |
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size 1026128
|
nt_adapters/H3K4me1/test_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
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"num_samples": 3000,
|
| 3 |
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"max_length": 1000,
|
| 4 |
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|
| 5 |
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"token_len": 171,
|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K4me1_finetuned/model-best-epoch6-mcc_score0.5279",
|
| 7 |
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"cache_key": "1cf757dd2666055cc44f6064e9d5471b",
|
| 8 |
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"split": "test",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H3K4me1/train_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
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|
| 3 |
+
size 9234128
|
nt_adapters/H3K4me1/val_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
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"num_samples": 3000,
|
| 3 |
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"max_length": 1000,
|
| 4 |
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"hidden_size": 2560,
|
| 5 |
+
"token_len": 171,
|
| 6 |
+
"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K4me1_finetuned/model-best-epoch6-mcc_score0.5279",
|
| 7 |
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"cache_key": "507beb2f957ed9fbf0500e698721765f",
|
| 8 |
+
"split": "val",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H3K4me2/test_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
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|
| 3 |
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size 731324
|
nt_adapters/H3K4me2/val_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
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|
| 3 |
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size 1026128
|
nt_adapters/H3K4me3/test_mid_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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version https://git-lfs.github.com/spec/v1
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|
| 3 |
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size 265520
|
nt_adapters/H3K4me3/test_mid_metadata.json
ADDED
|
@@ -0,0 +1,12 @@
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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{
|
| 2 |
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|
| 3 |
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|
| 4 |
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|
| 5 |
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"token_len": 171,
|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K4me3_finetuned/model-best-epoch3-mcc_score0.6882",
|
| 7 |
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"cache_key": "eaa4d76b80e22879e981a74cca17a430",
|
| 8 |
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"split": "test",
|
| 9 |
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|
| 10 |
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"layer_tag": "mid",
|
| 11 |
+
"resolved_layer": 16
|
| 12 |
+
}
|
nt_adapters/H3K4me3/val_mid_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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version https://git-lfs.github.com/spec/v1
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|
| 3 |
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size 597602
|
nt_adapters/H3K9ac/test_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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{
|
| 2 |
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|
| 3 |
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|
| 4 |
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|
| 5 |
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|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K9ac_finetuned/model-best-epoch6-mcc_score0.5556",
|
| 7 |
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|
| 8 |
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"split": "test",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H3K9ac/train_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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{
|
| 2 |
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"num_samples": 20946,
|
| 3 |
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"max_length": 1000,
|
| 4 |
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"hidden_size": 2560,
|
| 5 |
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"token_len": 171,
|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K9ac_finetuned/model-best-epoch6-mcc_score0.5556",
|
| 7 |
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"cache_key": "c9418d79264eab2ef1a7fb1b11d5c4aa",
|
| 8 |
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"split": "train",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H3K9ac/val_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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{
|
| 2 |
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|
| 3 |
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|
| 4 |
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|
| 5 |
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"token_len": 171,
|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H3K9ac_finetuned/model-best-epoch6-mcc_score0.5556",
|
| 7 |
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"cache_key": "87036e2e70fc2835f741733890e16d8f",
|
| 8 |
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"split": "val",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H4K20me1/test_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
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|
| 3 |
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|
| 4 |
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|
| 5 |
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|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H4K20me1_finetuned/model-best-epoch3-mcc_score0.6816",
|
| 7 |
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|
| 8 |
+
"split": "test",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H4K20me1/test_mid_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
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| 3 |
+
size 776468
|
nt_adapters/H4K20me1/train_char_lens.npy
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
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version https://git-lfs.github.com/spec/v1
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| 3 |
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size 9234128
|
nt_adapters/H4K20me1/train_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
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|
| 3 |
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|
| 4 |
+
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|
| 5 |
+
"token_len": 171,
|
| 6 |
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"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H4K20me1_finetuned/model-best-epoch3-mcc_score0.6816",
|
| 7 |
+
"cache_key": "8f32146b05ab48c8e621b91ac5f4c867",
|
| 8 |
+
"split": "train",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H4K20me1/train_mid_metadata.json
ADDED
|
@@ -0,0 +1,12 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"num_samples": 27000,
|
| 3 |
+
"max_length": 1000,
|
| 4 |
+
"hidden_size": 2560,
|
| 5 |
+
"token_len": 171,
|
| 6 |
+
"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H4K20me1_finetuned/model-best-epoch3-mcc_score0.6816",
|
| 7 |
+
"cache_key": "27d4afa55bcbe2dd8f3d21b6048968ec",
|
| 8 |
+
"split": "train",
|
| 9 |
+
"format": "per_token_fp16",
|
| 10 |
+
"layer_tag": "mid",
|
| 11 |
+
"resolved_layer": 16
|
| 12 |
+
}
|
nt_adapters/H4K20me1/val_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"num_samples": 3000,
|
| 3 |
+
"max_length": 1000,
|
| 4 |
+
"hidden_size": 2560,
|
| 5 |
+
"token_len": 171,
|
| 6 |
+
"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H4K20me1_finetuned/model-best-epoch3-mcc_score0.6816",
|
| 7 |
+
"cache_key": "2db8770650a2f5a3161ffac069b54d87",
|
| 8 |
+
"split": "val",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/H4K20me1/val_mid_metadata.json
ADDED
|
@@ -0,0 +1,12 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"num_samples": 3000,
|
| 3 |
+
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|
| 4 |
+
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|
| 5 |
+
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|
| 6 |
+
"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/H4K20me1_finetuned/model-best-epoch3-mcc_score0.6816",
|
| 7 |
+
"cache_key": "98cfc31378852395c12148e614abeeaf",
|
| 8 |
+
"split": "val",
|
| 9 |
+
"format": "per_token_fp16",
|
| 10 |
+
"layer_tag": "mid",
|
| 11 |
+
"resolved_layer": 16
|
| 12 |
+
}
|
nt_adapters/enhancers/test_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"num_samples": 3000,
|
| 3 |
+
"max_length": 1000,
|
| 4 |
+
"hidden_size": 2560,
|
| 5 |
+
"token_len": 71,
|
| 6 |
+
"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/enhancers_finetuned/model-best-epoch4-mcc_score0.5518",
|
| 7 |
+
"cache_key": "9e3f9c6b750d1a684f158ca2371166b0",
|
| 8 |
+
"split": "test",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|
nt_adapters/enhancers/train_metadata.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"num_samples": 27000,
|
| 3 |
+
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|
| 4 |
+
"hidden_size": 2560,
|
| 5 |
+
"token_len": 71,
|
| 6 |
+
"teacher_checkpoint": "/tmp/galaxy_srv_disk00/pengchx3/rebuttal_nt/nt_adapters/finetuned_models/enhancers_finetuned/model-best-epoch4-mcc_score0.5518",
|
| 7 |
+
"cache_key": "707eab7d92f4648a7b8d5844e8726876",
|
| 8 |
+
"split": "train",
|
| 9 |
+
"format": "per_token_fp16"
|
| 10 |
+
}
|