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README.md

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  • Download PubMedCentral Author Manuscript Collection into ~/pmc_dataset folder.
    Expected folder content: 
    author_manuscript_xml.PMC001xxxxxx.baseline.2022-06-16.filelist.csv
author_manuscript_xml.PMC001xxxxxx.baseline.2022-06-16.filelist.txt
author_manuscript_xml.PMC001xxxxxx.baseline.2022-06-16.tar.gz
...
  • Extract all downloaded tar.gz files.
    Expected extracted folders: 
    PMC001xxxxxx
PMC002xxxxxx
PMC003xxxxxx
PMC004xxxxxx
PMC005xxxxxx
PMC006xxxxxx
PMC007xxxxxx
PMC008xxxxxx
PMC009xxxxxx
  • Launch dataset/analyze_archive.ipynb to analyze downloaded archive.
  • Launch dataset/prepare_dataset.ipynb to create tables required for model training.
  • Refer to train/README.md for instruction on model training.