Datasets:

datajuicer
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the-pile-pubmed-central-refined-by-data-juicer

text stringlengths 3.47k 75.5k	meta dict	stats dict	simhash float64 101,270,602B 18,334,047,329B
Background ========== Congenital fibrosis of the extraocular muscles (CFEOM) and Duane syndrome (DS) are complex strabismus disorders that present with congenital restrictive ophthalmoplegia with or without ptosis. These disorders were traditionally believed to reflect primary structural extraocular muscle (EOM) anoma...	{ "from": "PMC100320.md" }	{ "alnum_ratio": 0.6874214965, "avg_line_length": 162.9532163743, "char_rep_ratio": 0.156842332, "flagged_words_ratio": 0, "lang": "en", "lang_score": 0.9039446115, "max_line_length": 1949, "num_words": 5212, "perplexity": 1484.7, "special_char_ratio": 0.3397452001, "text_len": 27865, "word_rep_...	1,533,004,202,812,425,200
Background ========== Identification of species with molecular probes is likely to revolutionize taxonomy, at least for taxa with morphological characters that are difficult to determine otherwise. Among these are the single cell eucaryotes, such as Ciliates and Flagellates, but also many other kinds of small organism...	{ "from": "PMC100321.md" }	{ "alnum_ratio": 0.7977999211, "avg_line_length": 181, "char_rep_ratio": 0.06109658, "flagged_words_ratio": 0, "lang": "en", "lang_score": 0.9257469773, "max_line_length": 1593, "num_words": 3702, "perplexity": 489.1, "special_char_ratio": 0.2119179163, "text_len": 20272, "word_rep_ratio": 0.008...	9,161,345,934,003,701,000
Background ========== Nerve growth factor (NGF), a prototypical neurotrophic factor and a member of the neurotrophin family, promotes a wide range of responses in its target cells. These range from neuronal differentiation, maintenance of survival, and regulation of metabolic activities \[for review see \[[@B1]-[@B3]\...	{ "from": "PMC100322.md" }	{ "alnum_ratio": 0.7158799131, "avg_line_length": 182.4504504505, "char_rep_ratio": 0.1062847265, "flagged_words_ratio": 0, "lang": "en", "lang_score": 0.9001348615, "max_line_length": 2103, "num_words": 7576, "perplexity": 1556.3, "special_char_ratio": 0.3345595497, "text_len": 40504, "word_rep...	17,676,670,310,284,350,000
Background ========== Over the last 50 years, the widespread usage of fluoridated water and fluoridated dentrifices have been cited as major reasons for a decline in caries since the early 1970s \[[@B1]\], and for the appearance of a significant association between oral hygiene and caries experience \[[@B2]-[@B4]\]. A...	{ "from": "PMC100323.md" }	{ "alnum_ratio": 0.7283410941, "avg_line_length": 147.5186915888, "char_rep_ratio": 0.1010139417, "flagged_words_ratio": 0, "lang": "en", "lang_score": 0.9154974222, "max_line_length": 1468, "num_words": 5944, "perplexity": 1015.7, "special_char_ratio": 0.3088472869, "text_len": 31569, "word_rep...	6,339,294,179,856,051,000
Background ========== In 1990 the National Institutes of Health Consensus Development Conference \[[@B1]\] concluded that breast conserving surgery (BCS) followed by radiation is an appropriate method of primary treatment for the majority of women with early stage breast cancer (AJCC stages \[[@B2]\] I, IIA, and IIB)....	{ "from": "PMC100324.md" }	{ "alnum_ratio": 0.6880668102, "avg_line_length": 217.4042553191, "char_rep_ratio": 0.1366944037, "flagged_words_ratio": 0, "lang": "en", "lang_score": 0.956718564, "max_line_length": 2089, "num_words": 4795, "perplexity": 923.6, "special_char_ratio": 0.3423696744, "text_len": 30654, "word_rep_r...	14,593,834,344,152,842,000
Background ========== Health information systems (HIS) provide a scientific and technological framework to gather, manage, and interpret data to inform the public, policymakers, administrators, and health-care workers about the distribution and determinants of health conditions. Further, they can (and should) guide an...	{ "from": "PMC100325.md" }	{ "alnum_ratio": 0.7789434624, "avg_line_length": 148.22, "char_rep_ratio": 0.0869917327, "flagged_words_ratio": 0, "lang": "en", "lang_score": 0.9450731277, "max_line_length": 1055, "num_words": 4855, "perplexity": 376.9, "special_char_ratio": 0.2283767373, "text_len": 29644, "word_rep_ratio": ...	5,471,717,537,466,399,000
"Background\n==========\n\nThe manner in which accuracy of clinical tests is mathematically summaris(...TRUNCATED)	{ "from": "PMC100326.md" }	{"alnum_ratio":0.6352050976,"avg_line_length":116.7906976744,"char_rep_ratio":0.2102012353,"flagged_(...TRUNCATED)	1,726,739,655,135,848,400
"Background\n==========\n\nMost current methods of cancer early detection, such as mammography or ce(...TRUNCATED)	{ "from": "PMC100327.md" }	{"alnum_ratio":0.7641745939,"avg_line_length":170.2865497076,"char_rep_ratio":0.0723462728,"flagged_(...TRUNCATED)	12,080,472,256,741,220,000
"Background\n==========\n\nThe introduction of small subunit ribosomal RNA as a tool in microbial ta(...TRUNCATED)	{ "from": "PMC100357.md" }	{"alnum_ratio":0.6278115347,"avg_line_length":187.89373297,"char_rep_ratio":0.1876776701,"flagged_wo(...TRUNCATED)	4,875,588,495,623,949,000
"Background\n==========\n\nBlood leukocytes are found in two sub-populations constituting the circul(...TRUNCATED)	{ "from": "PMC100780.md" }	{"alnum_ratio":0.7616492516,"avg_line_length":138.4748603352,"char_rep_ratio":0.0874162564,"flagged_(...TRUNCATED)	4,695,717,970,301,022,000

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The Pile -- PubMed Central (refined by Data-Juicer)

A refined version of PubMed Central dataset in The Pile by Data-Juicer. Removing some "bad" samples from the original dataset to make it higher-quality.

This dataset is usually used to pretrain a Large Language Model.

Notice: Here is a small subset for previewing. The whole dataset is available here (About 83G).

Dataset Information

Number of samples: 2,694,860 (Keep ~86.96% from the original dataset)

Refining Recipe

# global parameters
project_name: 'Data-Juicer-recipes-pubmed-central'
dataset_path: '/path/to/your/dataset'  # path to your dataset directory or file
export_path: '/path/to/your/dataset.jsonl'

np: 50  # number of subprocess to process your dataset
open_tracer: true

# process schedule
# a list of several process operators with their arguments
process:
  - clean_email_mapper:
  - clean_links_mapper:
  - fix_unicode_mapper:
  - punctuation_normalization_mapper:
  - whitespace_normalization_mapper:

  - alphanumeric_filter:  # 89217
      tokenization: false
      min_ratio: 0.2787  # 3sigma
  - average_line_length_filter:  # for code
      max_len: 1200  # < 3sigma (1478) -- 7410
  - character_repetition_filter:
      rep_len: 10
      max_ratio: 0.3741  # 3sigma -- 65849
  - flagged_words_filter:
      lang: en
      tokenization: true
      max_ratio: 0.00195  # 3sigma -- 8305
  - language_id_score_filter:  # remove language filter
      min_score: 0.5  # 272359
  - maximum_line_length_filter:  # for code
      max_len: 7328  # remove 23808 samples
  - perplexity_filter:
      lang: en
      max_ppl: 8000  # remove 173883 samples
  - special_characters_filter:
      max_ratio: 0.842  # remove 87661 samples
  - text_length_filter:
      max_len: 136028  # 3sigma -- 15118
  - words_num_filter:
      lang: en
      tokenization: true
      min_num: 20  # remove 176537 samples
      max_num: 23305  # remove 15016 samples
  - word_repetition_filter:
      lang: en
      tokenization: true
      rep_len: 10
      max_ratio: 0.5981  # 3sigma -- 93843

  - document_simhash_deduplicator:
      tokenization: space
      window_size: 6
      lowercase: true
      ignore_pattern: '\p{P}'
      num_blocks: 6
      hamming_distance: 4

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Models trained or fine-tuned on datajuicer/the-pile-pubmed-central-refined-by-data-juicer