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InterMineR: an R package for InterMine databases.

Konstantinos A Kyritsis1,2,3, Bing Wang2,3, Julie Sullivan2,3

  • 1Laboratory of Pharmacology, School of Pharmacy, Aristotle University of Thessaloniki, Thessaloniki GR-54124, Greece.

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This summary is machine-generated.

InterMineR provides R users with a flexible interface to InterMine biological databases. This package automates data retrieval and downstream analysis, enhancing biological data exploration.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Data Science

Background:

  • Biological databases are essential for storing and accessing vast amounts of life science data.
  • InterMine is a popular platform for building and querying biological databases.
  • Researchers often use the R programming environment for statistical analysis and data visualization.

Purpose of the Study:

  • To develop a flexible R package for seamless interaction with InterMine databases.
  • To facilitate automated data retrieval and downstream analysis for biological researchers.
  • To enhance interoperability between InterMine resources and the R ecosystem.

Main Methods:

  • Development of the InterMineR package for R.
  • Integration with InterMine's query builder and term enrichment tools.
  • Ensuring compatibility with Bioconductor packages for extended functionality.

Main Results:

  • InterMineR offers a streamlined interface for accessing InterMine data within R.
  • The package enables automated data retrieval and integration with R's analytical tools.
  • Facilitates complex biological data analysis through R's statistical capabilities.

Conclusions:

  • InterMineR significantly simplifies and automates the process of accessing and analyzing biological data from InterMine databases using R.
  • The package empowers researchers to leverage R's extensive statistical and visualization tools for biological data exploration.
  • InterMineR enhances the utility of InterMine databases for the R-using scientific community.