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Updated: Feb 25, 2026
08:06
Genome-wide Determination of Mammalian Replication Timing by DNA Content Measurement
Published on: January 19, 2017
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valr: Reproducible genome interval analysis in R
Kent A Riemondy1, Ryan M Sheridan2, Austin Gillen1
1RNA Bioscience Initiative, University of Colorado School of Medicine, Aurora, CO, 80045, USA.
F1000Research
|July 29, 2017
Summary
New R package "valr" offers flexible and efficient genomic interval analysis for large datasets. It provides reproducible exploratory data analysis comparable to existing tools like BEDtools.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomic Data Analysis
Background:
- Genomic data is rapidly increasing in size and complexity.
- Reproducible exploratory data analysis is crucial for handling large genomic datasets.
Purpose of the Study:
- To develop a new R package named valr for flexible and efficient genomic interval analysis.
- To provide researchers with a tool for reproducible exploratory data analysis of large genomic datasets.
Main Methods:
- Development of the valr R package leveraging tidyverse tools like dplyr.
- Performance benchmarking of valr against established tools such as BEDtools.
Main Results:
- valr demonstrates efficient performance for genomic interval analysis.
- The package is suitable for both interactive analyses and integration into existing pipelines.
- valr offers comparable performance to BEDtools.
Conclusions:
- valr is a valuable new tool for genomic interval analysis.
- The package enhances reproducible exploratory data analysis for large-scale genomic data.
- valr provides a flexible and efficient alternative for bioinformaticians.
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