RabbitQC: High-speed scalable quality control for sequencing data

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Abstract

Motivation: Modern sequencing technologies continue to revolutionize many areas of biology and medicine. Since the generated datasets are error-prone, downstream applications usually require quality control methods to pre-process FASTQ files. However, existing tools for this task are currently not able to fully exploit the capabilities of computing platforms leading to slow runtimes. Results: We present RabbitQC, an extremely fast integrated quality control tool for FASTQ files, which can take full advantage of modern hardware. It includes a variety of operations and supports different sequencing technologies (Illumina, Oxford Nanopore and PacBio). RabbitQC achieves speedups between one and two orders-of-magnitude compared to other state-of-the-art tools.

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Yin, Z., Zhang, H., Liu, M., Zhang, W., Song, H., Lan, H., … Liu, W. (2021). RabbitQC: High-speed scalable quality control for sequencing data. Bioinformatics, 37(4), 573–574. https://doi.org/10.1093/bioinformatics/btaa719

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