Alternatives and similar repositories for PubMed2PDF

Users that are interested in PubMed2PDF are comparing it to the libraries listed below

• metapub / metapub
  Python toolkit for NCBI metadata (via eutils) and pubmed article text mining -- official primary repo.
  ☆122Updated 3 weeks ago
• mims-harvard / ClinVec
  ClinVec: Unified Embeddings of Clinical Codes Enable Knowledge-Grounded AI in Medicine
  ☆61Updated 2 weeks ago
• tatonetti-lab / onsides
  A resource of adverse drug effects extracted from FDA structured product labels
  ☆81Updated 3 weeks ago
• SuLab / DrugMechDB
  A database of paths that represent the mechanism of action from a drug to a disease in an indication.
  ☆64Updated 2 months ago
• ckoenigs / PharMeBINet
  Build PharMeBINet from different sources.
  ☆18Updated this week
• luozhhub / pyMeSHSim
  a module to calculate the MeSH similarity
  ☆25Updated 3 years ago
• jvfe / pytrials
  Python package that wraps around the ClinicalTrials.gov API
  ☆56Updated last year
• billgreenwald / Pubmed-Batch-Download
  Batch download articles based on PMID (Pubmed ID)
  ☆126Updated last year
• bionlplab / bioc
  Data structures and code to read/write BioC XML and Json.
  ☆33Updated last year
• biopragmatics / bioversions
  🪝 What's the latest version for each database?
  ☆27Updated this week
• cthoyt / umls_downloader
  Don't worry about UMLS, RxNorm, SNOMED, or SemMedDB licensing - write code that knows how to download it automatically
  ☆40Updated last year
• krassowski / easy-entrez
  Retrieve PubMed articles, text-mining annotations, or molecular data from >35 Entrez databases via easy to use Python package - built on …
  ☆79Updated last year
• ncbi / AIONER
  AIONER
  ☆56Updated 11 months ago
• callahantiff / PheKnowLator
  PheKnowLator: Heterogeneous Biomedical Knowledge Graphs and Benchmarks Constructed Under Alternative Semantic Models
  ☆192Updated last year
• biocypher / project-template
  Template for creating a BioCypher-driven knowledge graph
  ☆12Updated last month
• Aitslab / EasyNER
  a customzable pipeline for information extraction
  ☆17Updated last month
• callahantiff / OMOP2OBO
  OMOP2OBO: A Python Library for mapping OMOP standardized clinical terminologies to Open Biomedical Ontologies
  ☆89Updated last year
• lasigeBioTM / K-RET
  K-RET: Knowledgeable Biomedical Relation Extraction System
  ☆10Updated 4 months ago
• gyorilab / gilda
  Grounding of biomedical named entities with contextual disambiguation
  ☆45Updated 2 months ago
• mims-harvard / SHEPHERD
  SHEPHERD: Few shot learning for phenotype-driven diagnosis of patients with rare genetic diseases
  ☆61Updated 2 weeks ago
• larsjuhljensen / tagger
  ☆22Updated 2 years ago
• ncbi-nlp / pubtator-gpt
  ☆26Updated last year
• dhimmel / obonet
  OBO-formatted ontologies → networkx (Python 3)
  ☆140Updated 3 months ago
• RTXteam / RTX-KG2
  Build system for the RTX-KG2pre biomedical knowledge graph, part of the ARAX reasoning system (https://github.com/RTXTeam/RTX)
  ☆44Updated 2 weeks ago
• chenzxlabhzau / pyMeSHSim
  a module to calculate the MeSH similarity
  ☆26Updated 4 years ago
• SmartDataAnalytics / BioKEEN
  A computational library for learning and evaluating biological knowledge graph embeddings - please see the main PyKEEN repo at https://gi…
  ☆45Updated 2 years ago
• biocypher / biochatter-light
  The light frontend for BioChatter, in pure Python
  ☆54Updated this week
• biopragmatics / pyobo
  📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures
  ☆70Updated last week
• IliaZenkov / async-pubmed-scraper
  PubMed scraper for async search on a list of keywords and concurrent extraction of all found URLs, returning a DataFrame/CSV containing a…
  ☆42Updated 4 years ago
• biocypher / biochatter
  Backend library for conversational AI in biomedicine
  ☆169Updated this week