biopython by biopython

Official git repository for Biopython (originally converted from CVS)

created at March 15, 2009, 9:09 p.m.

168 +0

4,207 +9

1,724 +0

mimic-code by MIT-LCP

MIMIC Code Repository: Code shared by the research community for the MIMIC family of databases

created at Sept. 1, 2015, 11:03 p.m.

135 +0

2,369 +10

1,486 +1

CommonDataModel by OHDSI

Definition and DDLs for the OMOP Common Data Model (CDM)

created at Oct. 14, 2014, 8:20 p.m.

124 +0

843 +2

439 +0

brat by nlplab

brat rapid annotation tool (brat) - for all your textual annotation needs

created at Jan. 28, 2011, 5:37 a.m.

80 +0

1,781 +0

510 +0

BioGPT by Microsoft

None

created at Aug. 15, 2022, 5:55 a.m.

70 +0

4,243 +1

438 +2

biobert by dmis-lab

Bioinformatics'2020: BioBERT: a pre-trained biomedical language representation model for biomedical text mining

created at Jan. 24, 2019, 6:27 p.m.

63 +0

1,861 +8

443 +0

scispacy by allenai

A full spaCy pipeline and models for scientific/biomedical documents.

created at Sept. 24, 2018, 9:45 p.m.

52 +0

1,625 +4

221 +0

scibert by allenai

A BERT model for scientific text.

created at Jan. 30, 2019, 7 p.m.

49 +0

1,448 +1

214 +1

medaCy by NLPatVCU

Medical Text Mining and Information Extraction with spaCy

created at Sept. 28, 2018, 2:48 p.m.

26 +0

423 +0

91 +0

biobert-pretrained by naver

BioBERT: a pre-trained biomedical language representation model for biomedical text mining

created at Jan. 28, 2019, 2:05 a.m.

26 +0

634 +1

85 +0

CogStack-SemEHR by CogStack

Surfacing Semantic Data from Clinical Notes in Electronic Health Records for Tailored Care, Trial Recruitment and Clinical Research

created at Oct. 14, 2016, 10:21 a.m.

25 +0

87 +0

19 +0

clinicalBERT by EmilyAlsentzer

repository for Publicly Available Clinical BERT Embeddings

created at April 5, 2019, 8:50 p.m.

25 +0

632 +1

127 +0

bluebert by ncbi-nlp

BlueBERT, pre-trained on PubMed abstracts and clinical notes (MIMIC-III).

created at June 6, 2019, 2:02 p.m.

23 +0

538 +0

77 +1

biolink-model by biolink

Schema and generated objects for biolink data model and upper ontology

created at Dec. 4, 2017, 4:45 a.m.

23 +0

168 +1

71 +0

anafora by weitechen

Anafora is a web-based raw text annotation tool

created at April 8, 2013, 4:44 p.m.

22 +0

238 +0

55 +0

HumanDiseaseOntology by DiseaseOntology

Repository for the Human Disease Ontology.

created at Sept. 23, 2015, 2:48 p.m.

20 +0

328 +2

109 +0

med7 by kormilitzin

None

created at Feb. 26, 2020, 11:03 p.m.

14 +0

197 +0

25 +0

clinicalBERT by kexinhuang12345

ClinicalBERT: Modeling Clinical Notes and Predicting Hospital Readmission (CHIL 2020 Workshop)

created at March 30, 2019, 8:06 a.m.

14 +0

353 +1

91 +0

rentrez by ropensci

talk with NCBI entrez using R

created at Feb. 11, 2012, 11:44 p.m.

14 +0

191 +1

40 +0

cord19 by allenai

Get started with CORD-19

created at April 27, 2020, 1:48 a.m.

13 +0

152 +2

21 +0