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BioSentVec
BioWordVec & BioSentVec: pre-trained embeddings for biomedical words and sentencesbluebert
BlueBERT, pre-trained on PubMed abstracts and clinical notes (MIMIC-III).BLUE_Benchmark
BLUE benchmark consists of five different biomedicine text-mining tasks with ten corpora.NegBio
π° High-performance tool for negation and uncertainty detection in radiology reportsBioWordVec
PhenoTagger
PhenoTaggerAb3P
Abbreviation definition dection library trained on PubMed abstractsPubMed-Best-Match
Machine-learning based pipeline relying on LambdaMART currently used in PubMed for relevance (Best Match) searchesTeamTat
Text annotation tool for team collaborationML_Net
ML-Net is a novel end-to-end deep learning framework for multi-label classification of biomedical tasks. ML-Net combines the label prediction network with a label count prediction network, which can determine the output labels based on both label confidence scores and document context in an end-to-end manner.TrialGPT
Code and data for TrialGPT.COVID-19-CT-CXR
COVID-19-CT-CXR, a public database of COVID-19 CXR and CT imagesMedCalc-Bench
Benchmarking the medical calculation capabilities of large language models.ezTag
Web interface that allows users to perform computer-assisted text annotationBioC-JSON
Tool that converts between BioC XML files and BioC JSON filesNQAC
pubtator-gpt
DeepRel
A convolutional neural network model for relation extraction.NCBITextLib
Software library for building a large-scale data infrastructure for text miningBC6PM
Evaluation scripts for BioCreative VI Precision Medicine TrackVarTriage
PubTator-Covid19
CovidTermVar
TaggerOne
General-purpose tagger for joint named entity recognition and normalization. Includes models for both diseases and chemicals (drugs) in biomedical publications.Medical-Imaging-Causal-Fairness
Unmasking-GPT-Bias
PhenoRerank
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