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sfchen authored Oct 11, 2024
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[![fastp ci](https://github.com/OpenGene/fastp/actions/workflows/ci.yml/badge.svg?branch=master)](https://github.com/OpenGene/fastp/actions/workflows/ci.yml)

# fastp
A tool designed to provide fast all-in-one preprocessing for FastQ files. This tool is developed in C++ with multithreading supported to afford high performance.
A tool designed to provide ultrafast all-in-one preprocessing and quality control for FastQ data.

This tool is designed for processing short reads (i.e. Illumina NovaSeq, MGI), if you are looking for tools to process long reads (i.e. Nanopore, PacBio, Cyclone), please use [fastplong](https://github.com/OpenGene/fastplong)

Citation: Shifu Chen. 2023. Ultrafast one-pass FASTQ data preprocessing, quality control, and deduplication using fastp. iMeta 2: e107. https://doi.org/10.1002/imt2.107

- [fastp](#fastp)
- [features](#features)
- [simple usage](#simple-usage)
- [examples of report](#examples-of-report)
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