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Closing gaps between open software and public data in a hackathon setting: User-centered software prototyping.

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Summary
This summary is machine-generated.

Biological data science hackathons bridge the gap between public datasets and open-source tools. These events rapidly prototype software solutions for genomics and bioinformatics challenges, promoting open data and code sharing.

Keywords:
BioconductorEducationGenome AnnotationGenomicsNext Generation SequencingOpen-SourcePharmacogenomicsSoftware

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Area of Science:

  • Genomics
  • Bioinformatics
  • Data Science

Background:

  • Gaps exist between public datasets and open-source software tools in genomics and bioinformatics.
  • These gaps hinder the analysis of biological data.

Purpose of the Study:

  • To address the gap between public datasets and open-source software tools.
  • To rapidly prototype software solutions for genomics and bioinformatics challenges.

Main Methods:

  • Assembling genomics/bioinformatics professionals and software developers.
  • Utilizing biological data science hackathons.
  • Ensuring data is publicly available or deposited in repositories.
  • Requiring all software to be open-source or open-use.
  • Developing and publishing code on GitHub.

Main Results:

  • Successful rapid prototyping of software to address data analysis gaps.
  • Creation of open-source software pipelines for biological data.
  • Publication of code and pipelines on GitHub for community access.

Conclusions:

  • Biological data science hackathons are effective in bridging the gap between data and tools.
  • The open-source and open-data principles foster collaborative development and accessibility.
  • These hackathons accelerate the development of crucial bioinformatics and genomics software.