pubmed-central

There are 31 repositories under pubmed-central topic.

  • pubmed_parser

    titipata/pubmed_parser

    :clipboard: A Python Parser for PubMed Open-Access XML Subset and MEDLINE XML Dataset

    Language:Python57921102166

  • Rostlab/nalaf

    NLP framework in python for entity recognition and relationship extraction

    Language:Python1121317726

  • krassowski/easy-entrez

    Retrieve PubMed articles, text-mining annotations, or molecular data from >35 Entrez databases via easy to use Python package - built on top of Entrez E-utilities API.

    Language:Python684146

  • jakelever/pubrunner

    A framework for keeping biomedical text mining result up-to-date

    Language:Python41776

  • kermitt2/biblio_glutton_harvester

    Open Access PDF harvester

    Language:Python35415

  • wpoa/open-access-media-importer

    A tool for harvesting media files from Open Access articles for upload into Wikimedia Commons

    Language:Python23121418

  • jakelever/biotext

    Get a nicely-chunked local copy of the biomedical literature (to use for other projects)!

    Language:Python134145

  • Ailuropoda1864/PMC-text-mining

    The aim of this project is to use the text from biomedical and life science literature to gain insights on research topic trends over time.

    Language:Jupyter Notebook9202

  • wpoa/recitation-bot

    MediaWiki bot to upload content to Wikimedia projects and update corresponding citations on Wikipedia.

    Language:Python912673

  • danielfrees/scrapemed

    ScrapeMed: Data scraping for PubMed Central.

    Language:Python8101

  • napsternxg/PubMed_SelfCitationAnalysis

    Repository of our paper on Self-citation analysis in PubMed data

    Language:Jupyter Notebook8201

  • tiadams/pmc-downloader

    Batch downloads full-text PDFs (or any other soruces) from PubmedCentral OA articles

    Language:Shell8101

  • citation-js/plugin-quickstatements

    Citation.js plugin to output QuickStatements

    Language:JavaScript7342

  • NCBI-Hackathons/Hidden-Figures

    A pipeline for inferring gender for acknowledged individuals in scientific literature on a massive scale

    Language:Jupyter Notebook71043

  • nicford/Pubmed-Pipeline

    A library that facilitates the process of building a machine learning pipeline using PubMed as a data source

    Language:Python5201

  • etowahadams/PMC-figure-downloader

    Extract figures and figure captions from PMC open access papers

    Language:Jupyter Notebook4100

  • greenelab/snorkeling-full-text

    This is an upgraded version of the original snorkeling project.

    Language:Jupyter Notebook4411

  • LBMCF/format-input

    This script reads the exported (.csv|.txt) files from Scopus, Web of Science, PubMed, PubMed Central, Dimensions or Google Scholar exported from Publish or Perish databases and turns each of them into a new file with an unique format. This script will ignore duplicated records.

    Language:Python410

  • citation-js/plugin-pubmed

    Citation.js plugin for PubMed and PubMed Central identifiers

    Language:JavaScript333

  • dualword/dualword-pmc

    PubMed Central browser

    Language:C++3201

  • FAIR-ethics/PMC-ethics

    observations about ethical aspects of publications available via PubMed Central

    2100

  • glenjasper/format-input

    This script reads the exported (.csv|.txt) files from Scopus, Web of Science, PubMed, PubMed Central, Dimensions or Google Scholar exported from Publish or Perish databases and turns each of them into a new file with an unique format. This script will ignore duplicated records.

    Language:Python2100

  • glenjasper/remove-duplicates

    This script eliminates the duplicated records from formatted .xlsx files from Scopus, Web of Science, PubMed, PubMed Central, Dimensions or Google Scholar exported from Publish or Perish. Is mandatory that there be at least 2 different files from 2 different databases.

    Language:Python2100
  • puremoe

    jaytimm/puremoe

    An R package that provides streamlined access to multiple PubMed databases, including abstracts, bibliometrics, NER annotations, and full texts.

    Language:R2200

  • LBMCF/remove-duplicates

    This script eliminates the duplicated records from formatted .xlsx files from Scopus, Web of Science, PubMed, PubMed Central, Dimensions or Google Scholar exported from Publish or Perish. Is mandatory that there be at least 2 different files from 2 different databases.

    Language:Python210

  • osl-incubator/pymedx

    PyMedX is a Python library that provides access to PubMed.

    Language:Python2042

  • RohitChattopadhyay/ihop-reach

    API https://reach-api.nrnb-docker.ucsd.edu WebApp https://reach.nrnb-docker.ucsd.edu

    2301

  • clulab/edin-data

    Biomolecular events mined by Reach from PubMed Central

    11001

  • fusion-jena/fairjupyter

    FAIR Jupyter: a knowledge graph for semantic sharing and granular exploration of a computational notebook reproducibility dataset.

    Language:Jupyter Notebook120

  • pmc-tables/pmc-tables

    Extract relational tables from PubMed Central.

    Language:Jupyter Notebook1300

  • nancyshaji/PubMedFullText

    Provides link of the full-text article upon giving PubMed's PMID

    Language:Python0100