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fastp is a FASTQ data pre-processing tool. The algorithm has functions for quality control, trimming of adapters, filtering by quality, and read pruning. It also supports multi-threading. The Authors claim fastp to be faster than other FASQ pre-processing tools.


Sequence analysis; Data quality management


  • Operation: Sequence trimming; Formatting; Sequencing quality control
  • Input: FASTQ
  • Output: -
  • Software interface: Command-line user interface
  • Language: C++
  • Operating system: Linux
  • License: The MIT License
  • Cost: Free
  • Version name: 0.20.0
  • Credit: Special Funds for Future Industries of Shenzhen, the National Science Foundation of China.
  • Contact: Shifu Chen chen _at_
  • Collection: -


Chen S, Zhou Y, Chen Y, Gu J "fastp: an ultra-fast all-in-one FASTQ preprocessor." Bioinformatics. 2018 Sep 1;34(17):i884-i890.
PMID: 30423086
PMCID: PMC6129281

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