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NucBalancer: streamlining barcode sequence selection for optimal sample pooling for sequencing.
Saurabh Gupta1,2, Ankur Sharma1,2,3
1Harry Perkins Institute of Medical Research, QEII Medical Centre and Centre for Medical Research, 6 Verdun Street, Nedlands, Perth, Western Australia, 6009, Australia.
Gigabyte (Hong Kong, China)
|October 21, 2024
Summary
NucBalancer is a new R-based tool that optimizes barcode selection for next-generation sequencing (NGS). It ensures accurate sample pooling and demultiplexing across diverse platforms, enhancing data reliability.
Area of Science:
- Genomics
- Bioinformatics
Background:
- Next-generation sequencing (NGS) technologies are rapidly evolving, necessitating adaptable and cost-effective tools.
- New sequencing platforms present challenges in sample preparation, pooling, and demultiplexing due to unique requirements.
- Library conversion between platforms requires efficient barcode balancing to maintain data integrity.
Purpose of the Study:
- To introduce NucBalancer, a Shiny app designed for optimal barcode sequence selection in NGS.
- To address nucleotide composition challenges for specific sequencers (G400, T7) and broader NGS applications.
- To facilitate adaptation of libraries, such as 10x Genomics, for various sequencing platforms.
Main Methods:
- Development of NucBalancer, a versatile Shiny application implemented in R.
- Algorithm designed for optimal selection of barcode sequences.
- Functionality to balance nucleotide composition and sample concentrations for pooling.
Main Results:
- NucBalancer efficiently balances nucleotide composition and sample concentrations, reducing biases.
- The tool enhances the reliability of NGS data across different sequencing platforms.
- Enables adaptation of libraries for diverse sequencing needs, including single-cell genomics.
Conclusions:
- NucBalancer provides a crucial solution for barcode balancing in the dynamic NGS landscape.
- Its adaptability supports various sequencing technologies and applications, improving data accuracy.
- The tool is invaluable for ensuring effective sample pooling and demultiplexing on any platform.
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