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OpenStats: A robust and scalable software package for reproducible analysis of high-throughput phenotypic data
Hamed Haselimashhadi1, Jeremy C Mason1, Ann-Marie Mallon2
1European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.
Plos One
|December 30, 2020
Summary
OpenStats is a new, free software package that improves the speed and scalability of statistical analysis for high-throughput phenotyping. It enhances data reproducibility and reusability in research like the International Mouse Phenotyping Consortium (IMPC).
Area of Science:
- Genomics and Bioinformatics
- Computational Biology
- Statistical Genetics
Background:
- Reproducibility in high-throughput phenotyping requires robust statistical analysis software.
- Scalability and extensibility are common challenges in current analysis tools.
- The International Mouse Phenotyping Consortium (IMPC) relies on efficient data analysis pipelines.
Purpose of the Study:
- To introduce OpenStats, a freely available software package designed to address scalability and extensibility challenges in statistical analysis for high-throughput phenotyping.
- To demonstrate the performance and advantages of OpenStats within a real-world high-throughput phenomic pipeline.
Main Methods:
- Development and implementation of the OpenStats software package.
- Performance evaluation of OpenStats in the IMPC high-throughput phenotyping pipeline.
- Comparison of OpenStats results with existing similar software implementations.
Main Results:
- OpenStats demonstrates significant improvements in speed and scalability compared to existing packages.
- Achieved a 13-fold improvement in computational time for the IMPC production analysis pipeline.
- OpenStats promotes FAIR data principles through increased transparency and reusability.
Conclusions:
- OpenStats provides a robust and reliable foundation for statistical analysis in high-throughput phenotyping.
- The software enhances reproducibility and reusability of statistical methods and results.
- OpenStats offers a faster, more scalable, and transparent solution for complex biological data analysis.
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