Hugging Face's logo

Datasets:
Synthyra
/
SpeedrunningPLMs

Tasks:
Fill-Mask
Size:
1M<n<10M
Tags:
protein
protein-language-model
masked-language-modeling
benchmark
speedrun
alphafold
License:
Dataset card Files
xet
 Community
SpeedrunningPLMs
File size: 2,515 Bytes
d119db2
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
{
  "files": {
    "probe_subset.i64": {
      "bytes": 160000,
      "sha256": "5cc6afa12e994e3209c751c4070fcf612da386c589972a00465b1a9202dcf334"
    },
    "test.pt": {
      "bytes": 149531512,
      "sha256": "c3de0d7e028b84868dec49e7f72220b4b62c26ede74e5911ceb1d1093d9cefe0"
    },
    "train_families.json": {
      "bytes": 23938324,
      "sha256": "4b558fb4cfe9e80a18db4a6e987efd5bc1796b481a26753e767268e7a081fe50"
    },
    "train_offsets.i64": {
      "bytes": 14032280,
      "sha256": "04d945fe21edab918dc975a29b5f4b60309d98c427bec7035781b71d30322887"
    },
    "train_three_di.u8": {
      "bytes": 392592221,
      "sha256": "2c3f6077a1fdfcd73468d42d1cfbd6e5a84f9be8baac59988c55fbfb27451f6d"
    },
    "train_tokens.u8": {
      "bytes": 392592221,
      "sha256": "7558e3abbef2a3fc0efb1641b3b3fd2a9a2e718fb8fde9c36c122d7c6d601b57"
    },
    "val_select.pt": {
      "bytes": 14766458,
      "sha256": "4f4aa1da183d35e7dd7c2a8bbc5520b11f13b9bc6574a5ee9a909e2d8043c238"
    },
    "validation.pt": {
      "bytes": 151576442,
      "sha256": "34db70938ae0c0c92d7ea10467f0c8330f0e53a530a672269de6f74074cb9ccf"
    }
  },
  "length_bins": [
    [
      50,
      100
    ],
    [
      100,
      250
    ],
    [
      250,
      500
    ],
    [
      500,
      1000
    ],
    [
      1000,
      2047
    ]
  ],
  "mask_seed": 20261028,
  "max_tokens": {
    "test": 2048,
    "val_select": 1024,
    "validation": 2048
  },
  "objective": {
    "classes": "ACDEFGHIKLMNPQRSTVWY",
    "cross_entropy": "collapse_free",
    "loss": "masked residues",
    "mask_rate": 0.15,
    "masked": "standard residues",
    "replacement": "mask_only"
  },
  "schema_version": 2,
  "shuffle_seed": 0,
  "source": {
    "repo_id": "Synthyra/alignment_atlas_families_afdb_v6",
    "revision": "83737fa33e72b74faeb5b046a45a327f660ad116"
  },
  "splits": {
    "test": {
      "families": 4807,
      "proteins": 25778,
      "residues": 6098489,
      "scored_residues": 915208,
      "width": 1927
    },
    "val_select": {
      "families": 4751,
      "proteins": 4751,
      "residues": 1066372,
      "scored_residues": 156231,
      "width": 1024
    },
    "validation": {
      "families": 4751,
      "proteins": 25459,
      "residues": 5919918,
      "scored_residues": 889145,
      "width": 1978
    }
  },
  "tokenizer": "esm2",
  "train": {
    "families": 333143,
    "probe_subset": 20000,
    "proteins": 1754034,
    "residues": 389084153,
    "tokens": 392592221
  },
  "vocab_size": 33
}