Alternatives and similar repositories for PhenoBERT

Users that are interested in PhenoBERT are comparing it to the libraries listed below

• ncbi-nlp / PhenoTagger
  PhenoTagger
  ☆64Updated 2 years ago
• ncbi / tmVar3
  ☆22Updated 2 years ago
• WGLab / PhenoGPT
  ☆29Updated 10 months ago
• anergictcell / pyhpo
  A Python library to work with, analyze, filter and inspect the Human Phenotype Ontology
  ☆28Updated 10 months ago
• stormliucong / doc2hpo
  ☆33Updated last year
• EBISPOT / efo
  Github repo for the Experimental Factor Ontology (EFO)
  ☆62Updated last week
• bio-ontology-research-group / phenomenet-vp
  A phenotype-based tool for variant prioritization in WES and WGS data
  ☆41Updated 3 years ago
• krishnanlab / txt2onto
  Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.
  ☆27Updated last year
• TheJacksonLaboratory / Phenomiser
  Phenotype-based Diagnosis Tool for Rare Diseases
  ☆12Updated 9 months ago
• sujunhao / RENET2
  RENET2: High-Performance Full-text Gene-Disease Relation Extraction with Iterative Training Data Expansion
  ☆29Updated 4 years ago
• ga4gh / phenopacket-schema
  Repository for the GA4GH phenopacket schema
  ☆93Updated 2 weeks ago
• ncbi / GNorm2
  ☆26Updated 2 years ago
• monarch-initiative / phenopacket-store
  Collections of GA4GH phenopackets that represent individuals with Mendelian diseases.
  ☆30Updated this week
• obophenotype / upheno
  The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.
  ☆83Updated 3 weeks ago
• ncbi-nlp / pubtator-gpt
  ☆32Updated 2 years ago
• ncbi / AIONER
  AIONER
  ☆62Updated last year
• Orphanet / Orphadata_aggregated
  Provided files are a partial extraction of the Orphanet knowledge base on Rare Diseases
  ☆53Updated last month
• jakelever / biowordlists
  Biomedical wordlists (of drugs, genes, etc) for several text mining projects
  ☆19Updated 2 years ago
• biomedicalinformaticsgroup / cadmus
  A full-text article retrieval pipeline for biomedical literature.
  ☆22Updated 2 months ago
• cBioPortal / oncotree
  ☆46Updated last week
• OntoGene / OGER
  ☆24Updated 5 years ago
• greenelab / pubtator
  Retrieve and process PubTator annotations
  ☆44Updated 2 years ago
• ga4gh / va-spec
  An information model for representing variant annotations.
  ☆26Updated this week
• jakelever / pubrunner
  A framework for keeping biomedical text mining result up-to-date
  ☆42Updated 5 years ago
• bio2bel / bio2bel
  A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
  ☆21Updated 4 years ago
• ohsu-comp-bio / g2p-aggregator
  Associations of genomic features, drugs and diseases
  ☆48Updated 3 years ago
• WGLab / EHR-Phenolyzer
  A pipeline that takes clinical notes from EHRs and generate phenotype terms, then generate ranked gene list
  ☆37Updated 2 years ago
• billgreenwald / Pubmed-Batch-Download
  Batch download articles based on PMID (Pubmed ID)
  ☆133Updated 2 years ago
• mutalyzer / mutalyzer
  Tool suite for HGVS variant descriptions
  ☆48Updated 2 weeks ago
• obophenotype / cell-ontology
  An ontology of cell types
  ☆188Updated this week