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BioMedQuery Julia Package

Julia utilities to process and save results from BioMedical databases/APIs.

BioServices.jl (part of BioJulia) provides the basic interface to some of the APIs, while BioMedQuery helps parse and save results into MySQL, SQLite, DataFrames, CSV etc.

Supported APIs include:

National Library of Medicine (NLM)

• Entrez Programming Utilities (E-Utilities)
• Unified Medical Language System (UMLS)
• Clinical Trials (clinicaltrials.gov)
• MEDLINE (PubMed MEDLINE)

Installation

BioMedQuery is a registered package. To install the latest stable version, use the package manager.

Pkg.add("BioMedQuery")

To chekout the current master (development) branch:

Pkg.checkout("BioMedQuery")

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Related Packages

Function	Description
BioServices.jl	Interface to EUtils and UMLS APIs
PubMedMiner.jl	Examples of comorbidity studies using PubMed articles