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40 public repositories
matching this topic...
BioWordVec & BioSentVec: pre-trained embeddings for biomedical words and sentences
Updated
Feb 26, 2020
Jupyter Notebook
BLUE benchmark consists of five different biomedicine text-mining tasks with ten corpora.
Updated
Mar 25, 2021
Python
A Python biomedical relation extraction package that uses a supervised approach (i.e. needs training data).
Updated
Mar 25, 2021
Python
NLP framework in python for entity recognition and relationship extraction
Updated
Jun 18, 2021
Python
Cross-type Biomedical Named Entity Recognition with Deep Multi-task Learning (Bioinformatics'19)
Updated
Jun 1, 2021
Python
Multimodal Question Answering in the Medical Domain: A summary of Existing Datasets and Systems
Named Entity Recognition for biomedical entities
Updated
Jan 12, 2021
Python
[NAACL & ACL 2021] SapBERT: Self-alignment pretraining for BERT & XL-BEL: Cross-Lingual Biomedical Entity Linking.
Updated
Jun 1, 2021
Python
Updated
Jan 31, 2020
Python
A framework for keeping biomedical text mining result up-to-date
Updated
Jul 11, 2020
Python
Text-mined knowledgebase for drivers, oncogenes and tumor suppressors in cancer
Tokenization, sentence segmentation, POS tagging and dependency parsing for biomedical texts (BMC Bioinformatics 2019)
Updated
Apr 6, 2019
Python
Corpus of Online Medical EnTities: the cometA corpus
Updated
Jan 4, 2021
Jupyter Notebook
Repository used to collect biomedical corpus on the Internet!
AI assembly of bioNLP wordnets
Updated
Oct 31, 2017
Python
Text mining cancer biomarkers for the CIVIC database
Vancouver Event and Relation System for Extraction
Updated
Nov 9, 2017
Python
Updated
May 17, 2021
Python
Noise Reduction Methods for Distantly Supervised Biomedical Relation Extraction
Updated
Oct 25, 2017
Python
Various documents for deep Learning(Continually updated)
Updated
May 27, 2021
Python
PENNER: Pattern-enhanced Nested Named Entity Recognition in Biomedical Literature (BIBM'18)
Updated
Jun 1, 2021
Python
Data structures and code to read/write BioC XML and Json.
Updated
Jul 23, 2021
Python
Binary classifier to identify scientific publications reporting pharmacokinetic parameters estimated in vivo
Updated
Jun 21, 2021
Python
Biomedical wordlists (of drugs, genes, etc) for several text mining projects
Updated
Jul 14, 2021
Python
Text mining tumor antigens for cancer immunotherapy research
Updated
Dec 20, 2018
Python
Cross-type Biomedical Named Entity Recognition with Deep Multi-task Learning (Bioinformatics'19)
Updated
Dec 4, 2018
Python
This repository contains data and BioBert based NER model monologg/biobert_v1.1_pubmed from community-uploaded Hugging Face models for detecting entities such as chemical and disease.
Updated
Jun 26, 2020
Python
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download_model.py, add Argparse with parameters infinetune_nli.pyfor parameters:model_name, default 'models/scibert', typestrbatch_size, default 64, typeintmodel_save_path, default 'models/scibert_nli', typestrnum_epochs, default 2, typeintwarmup_steps, default None, not required`do_mean_pooli