fastp ☆
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Description:
Ultra-fast all-in-one FASTQ preprocessor
Type: Formula  |  Latest Version: 1.0.1@0  |  Tracked Since: Dec 17, 2025
Links: Homepage  |  formulae.brew.sh
Category: Other
Tags: bioinformatics genomics fastq preprocessing qc
Install: brew install fastp
About:
fastp is a tool designed to preprocess FASTQ files, offering both quality control and adapter trimming in a single, highly optimized step. It leverages multi-threading and SIMD instructions to deliver exceptional speed, significantly reducing processing time for large sequencing datasets. Its all-in-one nature simplifies preprocessing pipelines by consolidating multiple common tasks into one efficient utility.
Key Features:
  • Multi-threaded for high performance
  • Performs quality control and adapter trimming
  • Generates comprehensive QC reports in HTML and JSON
  • Supports multiple input/output formats (gzip, bzip2)
Use Cases:
  • Preparing raw sequencing data for downstream analysis
  • Generating quality control reports for sequencing runs
  • Trimming adapters and low-quality bases from reads
Alternatives:
  • Trimmomatic – Trimmomatic is a widely used older tool, but fastp is significantly faster and integrates more features into a single pass.
  • Cutadapt – Cutadapt is excellent for adapter trimming, but fastp offers a broader set of QC features and higher performance out of the box.
License: MIT
Dependencies: isa-l, libdeflate
Bottles available for: arm64_tahoe, arm64_sequoia, arm64_sonoma, arm64_ventura, sonoma, ventura, arm64_linux, x86_64_linux
Version History
Detected Version Rev Change Commit
Sep 13, 2025 6:17pm 0 VERSION_BUMP c7240f4b
Nov 8, 2024 9:33am 0 VERSION_BUMP 9479cc05
Sep 13, 2024 4:31am 0 VERSION_BUMP 4b95d8ba
Jan 2, 2024 12:28am 0 VERSION_BUMP 42df035c
Oct 9, 2023 6:55pm 0 VERSION_BUMP c8db5ba4
Apr 11, 2023 9:00pm 0 VERSION_BUMP 6cb99a4f
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