prepareMedicalCorpora

Some medical and clinical corpora needs an adaption for experiments, e.g., from XML-files to TXT-files. This repository is a collection of scripts to transform some German and English clinical corpora to experiments. Now, only German language in focussed. Here is either a link to the resources or a reference to a script containing instructions on requirements and scripting, should the texts need to be converted into plaintext.

[de] - GERMAN corpora

Clin.Real

• 3000PA_J: Code of creation of Jena part of 300OPA code from MSDoc files to plain text

Clin.Research

• Alzheimer
• ASSESS_DE
• Bronco
• Cardio:De
• Ex4CDS
• UroLlmEvalSet
• X_Ray_Distal_Fibula

Synthetic

• GraSCCo
• JSynCC-2-CaseDescription
• JSynCC-2-CaseReport
• JSynCC-2-Discussion
• JSynCC-2-EmergencyReport
• JSynCC-2-OperativeReport

Scientific

• GGPOnc-2
• JSynCC-2-PubMed
• MuchMore: crates a subsets of 7808 documents
• NTS_Animal_Reports
  • NTS Train set
  • NTS Test set
• Wikipedia_ICD-10

SocialMedia

• Technical_Laymen : request the data from https://aclanthology.org/2020.lrec-1.759.pdf
• Keepha-Adr : request the data from https://aclanthology.org/2024.lrec-main.36/
• Lifeline : request the data from https://aclanthology.org/2022.lrec-1.388/

MISC

• FANG-COVID
• Villena_Medical_Multilingual_Corpora

Installation

• 3000PA needs JAVA.
• Code for all the other corpora needs Python, see requirements.txt for further usages.

Contact

If you have further questions, do not hesitate to contact Christina Lohr.

Last edit: 2025/05/04.