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The aim is to develop a high-speed FASTQ preprocessor that integrates quality control and filtering features.

July 7, 2018BioinformaticsOpen Access

fastp: an ultra-fast all-in-one FASTQ preprocessor

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The aim is to develop a high-speed FASTQ preprocessor that integrates quality control and filtering features.
Developed fastp in C++ for enhanced speed and multi-threading support.
Performed a comparative evaluation of preprocessing speeds against tools like Trimmomatic and Cutadapt.
Integrated multiple preprocessing operations into a single scan of FASTQ data.
Fastp achieves preprocessing speeds 2–5 times faster than Trimmomatic and Cutadapt while carrying out more operations.
Demonstrates improved I/O efficiency and reduced processing time with less repeated data loading.

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Randomized trial finds fastp improves quality control and preprocessing speed in genomic data, suggesting effective data management.

Chen et al. (2018) studied this question.

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