NextClip: an analysis and read preparation tool for Nextera Long Mate Pair libraries

Area of Science:

• Genomics
• Bioinformatics

Background:

• Illumina's Nextera Long Mate Pair (LMP) kit generates libraries up to 12 kb.
• LMP libraries are crucial for complex assemblies and structural variant analysis.
• LMP library data can be noisy, requiring specialized analysis.

Purpose of the Study:

• To introduce NextClip, a novel tool for analyzing LMP library sequencing data.
• To standardize protocols and improve read selection for downstream bioinformatics.

Main Methods:

• Developed NextClip, a software tool for processing LMP reads.
• NextClip generates quality reports and extracts trimmed, deduplicated reads.

Main Results:

• NextClip provides a comprehensive quality report for LMP data.
• The tool effectively extracts high-quality, trimmed, and deduplicated reads.

Conclusions:

• NextClip enhances the value of LMP libraries for complex genomic analyses.
• The tool addresses the challenges of noise and data selection in LMP sequencing.