biopython by biopython

Official git repository for Biopython (originally converted from CVS)

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

168 +0

4,222 +3

1,727 +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.

137 +0

2,393 +7

1,493 +1

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

1,789 +4

510 +0

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

1,874 +0

445 +0

CommonDataModel by OHDSI

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

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

123 +0

850 +1

442 +1

BioGPT by Microsoft

None

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

70 +0

4,249 +3

441 +2

scispacy by allenai

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

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

52 +0

1,636 +2

223 +1

scibert by allenai

A BERT model for scientific text.

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

49 +0

1,460 +4

214 +0

clinicalBERT by EmilyAlsentzer

repository for Publicly Available Clinical BERT Embeddings

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

25 +0

634 +0

128 +1

HumanDiseaseOntology by DiseaseOntology

Repository for the Human Disease Ontology.

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

20 +0

329 +1

108 +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

360 +2

92 +0

medaCy by NLPatVCU

Medical Text Mining and Information Extraction with spaCy

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

26 +0

424 +1

91 +1

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

641 +0

85 +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

540 +1

77 +0

biolink-model by biolink

Schema and generated objects for biolink data model and upper ontology

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

24 +1

168 +0

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

rentrez by ropensci

talk with NCBI entrez using R

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

14 +0

192 +0

40 +0

BioWordVec by ncbi-nlp

None

created at Feb. 22, 2019, 4:32 p.m.

11 +0

141 +0

29 +0

med7 by kormilitzin

None

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

14 +0

198 +1

25 +0

cord19 by allenai

Get started with CORD-19

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

13 +0

153 +0

20 +0