dataset card

README.md

@@ -1,9 +1,24 @@
 ---
-YAML tags:
-- copy-paste the tags obtained with the tagging app: https://github.com/huggingface/datasets-tagging
+annotations_creators:
+- machine-generated
+language_creators:
+- expert-generated
+languages:
+- en
+licenses:
+- cc-by-4.0
+multilinguality:
+- monolingual
+size_categories:
+- n>1M
+source_datasets: []
+task_categories:
+- sequence-modeling
+task_ids:
+- language-modeling
 ---
 
-# Dataset Card for [Dataset Name]
+# Dataset Card for BioLang
 
 ## Table of Contents
 - [Dataset Card for [Dataset Name]](#dataset-card-for-dataset-name)
@@ -37,15 +52,16 @@ YAML tags:
 
 ## Dataset Description
 
-- **Homepage:**
-- **Repository:**
+- **Homepage:** https://sourcedata.embo.org
+- **Repository:** https://github.com/source-data/soda-roberta
 - **Paper:**
 - **Leaderboard:**
-- **Point of Contact:**
+- **Point of Contact:** thomas.lemberger@embo.org
+- **Download Size:** 5_299_878_661
 
 ### Dataset Summary
 
-This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. The dataset can be used for random masked language modeling or for language modeling using only specific part-of-speech maksing. More details on generation and use of the dataset at https://github.com/source-data/soda-roberta .
+BioLang is a dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. The dataset can be used for random masked language modeling or for language modeling using only specific part-of-speech maksing. More details on generation and use of the dataset at https://github.com/source-data/soda-roberta .
 
 ### Supported Tasks and Leaderboards
 
@@ -80,13 +96,26 @@ English
 
 ### Data Fields
 
-`input_ids`: token id in the roberta-base vocabulary.
-`labels_ids`: part of speech obtained with Spacy
-`spcial_tokens_mask`: special token
+`MLM`:
+- `input_ids`: a `list` of `int32` features.
+- `special_tokens_mask`: a `list` of `int8` features.
+
+`DET`, `VERB`, `SMALL`:
+- `input_ids`: a `list` of `int32` features.
+- `tag_mask`: a `list` of `int8` features.
+
 
 ### Data Splits
 
-[More Information Needed]
+- train:
+  - features: ['input_ids', 'special_tokens_mask'],
+  - num_rows: 12_005_390
+- test:
+  - features: ['input_ids', 'special_tokens_mask'],
+  - num_rows: 37_112
+- validation:
+  - features: ['input_ids', 'special_tokens_mask'],
+  - num_rows: 36_713
 
 ## Dataset Creation
 

dataset_infos.json

@@ -1 +1,284 @@
-{"MLM": {"description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n", "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n", "homepage": "https://europepmc.org/downloads/openaccess", "license": "CC BY 4.0", "features": {"input_ids": {"feature": {"dtype": "int32", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}, "special_tokens_mask": {"feature": {"dtype": "int8", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}}, "post_processed": null, "supervised_keys": {"input": "input_ids", "output": "pos_mask"}, "builder_name": "bio_lang", "config_name": "MLM", "version": {"version_str": "0.0.1", "description": null, "major": 0, "minor": 0, "patch": 1}, "splits": {"train": {"name": "train", "num_bytes": 11906898263, "num_examples": 12005390, "dataset_name": "bio_lang"}, "test": {"name": "test", "num_bytes": 36513458, "num_examples": 37112, "dataset_name": "bio_lang"}, "validation": {"name": "validation", "num_bytes": 36248011, "num_examples": 36713, "dataset_name": "bio_lang"}}, "download_checksums": {"https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {"num_bytes": 5299878661, "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"}}, "download_size": 5299878661, "post_processing_size": null, "dataset_size": 11979659732, "size_in_bytes": 17279538393}, "DET": {"description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n", "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n", "homepage": "https://europepmc.org/downloads/openaccess", "license": "CC BY 4.0", "features": {"input_ids": {"feature": {"dtype": "int32", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}, "tag_mask": {"feature": {"dtype": "int8", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}}, "post_processed": null, "supervised_keys": {"input": "input_ids", "output": "pos_mask"}, "builder_name": "bio_lang", "config_name": "DET", "version": {"version_str": "0.0.1", "description": null, "major": 0, "minor": 0, "patch": 1}, "splits": {"train": {"name": "train", "num_bytes": 11906898263, "num_examples": 12005390, "dataset_name": "bio_lang"}, "test": {"name": "test", "num_bytes": 36513458, "num_examples": 37112, "dataset_name": "bio_lang"}, "validation": {"name": "validation", "num_bytes": 36248011, "num_examples": 36713, "dataset_name": "bio_lang"}}, "download_checksums": {"https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {"num_bytes": 5299878661, "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"}}, "download_size": 5299878661, "post_processing_size": null, "dataset_size": 11979659732, "size_in_bytes": 17279538393}, "VERB": {"description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n", "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n", "homepage": "https://europepmc.org/downloads/openaccess", "license": "CC BY 4.0", "features": {"input_ids": {"feature": {"dtype": "int32", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}, "tag_mask": {"feature": {"dtype": "int8", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}}, "post_processed": null, "supervised_keys": {"input": "input_ids", "output": "pos_mask"}, "builder_name": "bio_lang", "config_name": "VERB", "version": {"version_str": "0.0.1", "description": null, "major": 0, "minor": 0, "patch": 1}, "splits": {"train": {"name": "train", "num_bytes": 11906898263, "num_examples": 12005390, "dataset_name": "bio_lang"}, "test": {"name": "test", "num_bytes": 36513458, "num_examples": 37112, "dataset_name": "bio_lang"}, "validation": {"name": "validation", "num_bytes": 36248011, "num_examples": 36713, "dataset_name": "bio_lang"}}, "download_checksums": {"https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {"num_bytes": 5299878661, "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"}}, "download_size": 5299878661, "post_processing_size": null, "dataset_size": 11979659732, "size_in_bytes": 17279538393}, "SMALL": {"description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n", "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n", "homepage": "https://europepmc.org/downloads/openaccess", "license": "CC BY 4.0", "features": {"input_ids": {"feature": {"dtype": "int32", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}, "tag_mask": {"feature": {"dtype": "int8", "id": null, "_type": "Value"}, "length": -1, "id": null, "_type": "Sequence"}}, "post_processed": null, "supervised_keys": {"input": "input_ids", "output": "pos_mask"}, "builder_name": "bio_lang", "config_name": "SMALL", "version": "0.0.1", "splits": {"train": {"name": "train", "num_bytes": 11906898263, "num_examples": 12005390, "dataset_name": "bio_lang"}, "test": {"name": "test", "num_bytes": 36513458, "num_examples": 37112, "dataset_name": "bio_lang"}, "validation": {"name": "validation", "num_bytes": 36248011, "num_examples": 36713, "dataset_name": "bio_lang"}}, "download_checksums": {"https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {"num_bytes": 5299878661, "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"}}, "download_size": 5299878661, "post_processing_size": null, "dataset_size": 11979659732, "size_in_bytes": 17279538393}}
+{
+    "MLM": {
+        "description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n",
+        "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n",
+        "homepage": "https://europepmc.org/downloads/openaccess",
+        "license": "CC BY 4.0",
+        "features": {
+            "input_ids": {
+                "feature": {
+                    "dtype": "int32",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            },
+            "special_tokens_mask": {
+                "feature": {
+                    "dtype": "int8",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            }
+        },
+        "post_processed": null,
+        "supervised_keys": {
+            "input": "input_ids",
+            "output": "pos_mask"
+        },
+        "builder_name": "bio_lang",
+        "config_name": "MLM",
+        "version": {
+            "version_str": "0.0.1",
+            "description": null,
+            "major": 0,
+            "minor": 0,
+            "patch": 1
+        },
+        "splits": {
+            "train": {
+                "name": "train",
+                "num_bytes": 11906898263,
+                "num_examples": 12005390,
+                "dataset_name": "bio_lang"
+            },
+            "test": {
+                "name": "test",
+                "num_bytes": 36513458,
+                "num_examples": 37112,
+                "dataset_name": "bio_lang"
+            },
+            "validation": {
+                "name": "validation",
+                "num_bytes": 36248011,
+                "num_examples": 36713,
+                "dataset_name": "bio_lang"
+            }
+        },
+        "download_checksums": {
+            "https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {
+                "num_bytes": 5299878661,
+                "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"
+            }
+        },
+        "download_size": 5299878661,
+        "post_processing_size": null,
+        "dataset_size": 11979659732,
+        "size_in_bytes": 17279538393
+    },
+    "DET": {
+        "description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n",
+        "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n",
+        "homepage": "https://europepmc.org/downloads/openaccess",
+        "license": "CC BY 4.0",
+        "features": {
+            "input_ids": {
+                "feature": {
+                    "dtype": "int32",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            },
+            "tag_mask": {
+                "feature": {
+                    "dtype": "int8",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            }
+        },
+        "post_processed": null,
+        "supervised_keys": {
+            "input": "input_ids",
+            "output": "pos_mask"
+        },
+        "builder_name": "bio_lang",
+        "config_name": "DET",
+        "version": {
+            "version_str": "0.0.1",
+            "description": null,
+            "major": 0,
+            "minor": 0,
+            "patch": 1
+        },
+        "splits": {
+            "train": {
+                "name": "train",
+                "num_bytes": 11906898263,
+                "num_examples": 12005390,
+                "dataset_name": "bio_lang"
+            },
+            "test": {
+                "name": "test",
+                "num_bytes": 36513458,
+                "num_examples": 37112,
+                "dataset_name": "bio_lang"
+            },
+            "validation": {
+                "name": "validation",
+                "num_bytes": 36248011,
+                "num_examples": 36713,
+                "dataset_name": "bio_lang"
+            }
+        },
+        "download_checksums": {
+            "https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {
+                "num_bytes": 5299878661,
+                "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"
+            }
+        },
+        "download_size": 5299878661,
+        "post_processing_size": null,
+        "dataset_size": 11979659732,
+        "size_in_bytes": 17279538393
+    },
+    "VERB": {
+        "description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n",
+        "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n",
+        "homepage": "https://europepmc.org/downloads/openaccess",
+        "license": "CC BY 4.0",
+        "features": {
+            "input_ids": {
+                "feature": {
+                    "dtype": "int32",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            },
+            "tag_mask": {
+                "feature": {
+                    "dtype": "int8",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            }
+        },
+        "post_processed": null,
+        "supervised_keys": {
+            "input": "input_ids",
+            "output": "pos_mask"
+        },
+        "builder_name": "bio_lang",
+        "config_name": "VERB",
+        "version": {
+            "version_str": "0.0.1",
+            "description": null,
+            "major": 0,
+            "minor": 0,
+            "patch": 1
+        },
+        "splits": {
+            "train": {
+                "name": "train",
+                "num_bytes": 11906898263,
+                "num_examples": 12005390,
+                "dataset_name": "bio_lang"
+            },
+            "test": {
+                "name": "test",
+                "num_bytes": 36513458,
+                "num_examples": 37112,
+                "dataset_name": "bio_lang"
+            },
+            "validation": {
+                "name": "validation",
+                "num_bytes": 36248011,
+                "num_examples": 36713,
+                "dataset_name": "bio_lang"
+            }
+        },
+        "download_checksums": {
+            "https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {
+                "num_bytes": 5299878661,
+                "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"
+            }
+        },
+        "download_size": 5299878661,
+        "post_processing_size": null,
+        "dataset_size": 11979659732,
+        "size_in_bytes": 17279538393
+    },
+    "SMALL": {
+        "description": "This dataset is based on abstracts from the open access section of EuropePubMed Central to train language models in the domain of biology. \n",
+        "citation": "@Unpublished{\n    huggingface: dataset,\n    title = {biolang},\n    authors={Thomas Lemberger, EMBO},\n    year={2021}\n}\n",
+        "homepage": "https://europepmc.org/downloads/openaccess",
+        "license": "CC BY 4.0",
+        "features": {
+            "input_ids": {
+                "feature": {
+                    "dtype": "int32",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            },
+            "tag_mask": {
+                "feature": {
+                    "dtype": "int8",
+                    "id": null,
+                    "_type": "Value"
+                },
+                "length": -1,
+                "id": null,
+                "_type": "Sequence"
+            }
+        },
+        "post_processed": null,
+        "supervised_keys": {
+            "input": "input_ids",
+            "output": "pos_mask"
+        },
+        "builder_name": "bio_lang",
+        "config_name": "SMALL",
+        "version": "0.0.1",
+        "splits": {
+            "train": {
+                "name": "train",
+                "num_bytes": 11906898263,
+                "num_examples": 12005390,
+                "dataset_name": "bio_lang"
+            },
+            "test": {
+                "name": "test",
+                "num_bytes": 36513458,
+                "num_examples": 37112,
+                "dataset_name": "bio_lang"
+            },
+            "validation": {
+                "name": "validation",
+                "num_bytes": 36248011,
+                "num_examples": 36713,
+                "dataset_name": "bio_lang"
+            }
+        },
+        "download_checksums": {
+            "https://huggingface.co/datasets/EMBO/biolang/resolve/main/oapmc_abstracts_figs.zip": {
+                "num_bytes": 5299878661,
+                "checksum": "babe2e036065d73ca3361c96ce4c73aafd820aefaea1afd34bc5d1ac8e7760a5"
+            }
+        },
+        "download_size": 5299878661,
+        "post_processing_size": null,
+        "dataset_size": 11979659732,
+        "size_in_bytes": 17279538393
+    }
+}