biomedical-word-embeddings ========================== bash download_embeddings.sh bash PubMed-and-PMC-w2v.sh UMLS ==== install_umls.sh: downloads and installs the UMLS create_umls_db.sh: creates a SQLite database containing a subset of the UMLS Word embeddings =============== download_embeddings.sh: downloads word embeddings trained on PubMed and PMC text (http://bio.nlplab.org/) Analogies ========= analogy.sql: exports a spreadsheet of term pairs with the relationship procedure_has_excised_anatomy mrrel_vocab_excise.csv: a spreadsheet of term pairs with the relationship procedure_has_excised_anatomy pairs.csv: cleaned up version of term pairs with the relationship procedure_has_excised_anatomy create_analogies.py: produces analogies based on pairs.csv analogies.txt: analogies based on pairs.csv Install ======= pip install -r requirements.txt bash install_wvlib.sh