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examples

Examples

Link Language Description
01_BRONCO_German.ipynb 🇩🇪 Candidate generation and supervised re-ranking using the BRONCO corpus.
Shows how you can configure multiple dictionaries in the same config file.
02_spaCy_German.ipynb 🇩🇪 Using a spaCy NER model with xMEN
Shows how to build a pipeline without labelled data using candidate generation, type filtering and pre-trained re-rankers
03_SNOMED_Linking_German.ipynb 🇩🇪 Linking against codes in UMLS source vocabularies (here SNOMED CT)
04_Drug_Names_ATC.ipynb 🇩🇪 Normalization of medication mentions (without surrounding text) to ATC codes

External Links

Link Language Description
https://github.com/hpi-dhc/symptemist 🇪🇸 BioCreative VIII SympTEMIST + LLM-based Entity Simplification

Benchmarks

More examples for configurations can be found in the Benchmarks folder.

Benchmark Language
Quaero 🇫🇷
MedMentions 🇬🇧
DisTEMIST 🇪🇸
SympTEMIST 🇪🇸
BRONCO 🇩🇪
Mantra 🇬🇧 🇫🇷 🇪🇸 🇩🇪 🇳🇱