# Install chopper with Homebrew Filter and trim long-read sequencing data by quality and length. Version 0.13.0 via Homebrew; verified 2026-07-15. ## Install ```sh sudo av install brew:chopper ``` Additional install commands: ### macOS - Homebrew (100%): ```sh brew install chopper ``` Evidence: local Homebrew formula metadata ## Package facts - **Package key:** brew:chopper - **Package manager:** Homebrew - **Package manager page:** - **Version:** 0.13.0 - **Source summary:** Filter and trim long-read sequencing data by quality and length - **Homepage:** - **Repository:** - **License:** MIT - **Source archive:** - **Last updated:** 2026-07-15T10:09:42Z - **Generated:** 2026-08-04T22:13:35+00:00 ## Executables - chopper (cli) - chopper (alias) ## Build dependencies - cmake - rust ## Install behavior - Post-install hook: not defined - Bottle: available on arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux ## Freshness - Page generated: 2026-08-04 - Package-manager version: 0.13.0 - Package-manager updated: 2026-07-15 - Local data: ok - Upstream repository: https://github.com/wdecoster/chopper - Upstream latest detected: v0.13.0 (current) ## Project history and usage chopper is a Rust command-line program for filtering and trimming FASTQ reads from long-read sequencing platforms such as Oxford Nanopore and PacBio. It is designed as a faster reimplementation of functionality associated with the Python tools NanoFilt and NanoLyse. ### Project history The project's GitHub repository was created in August 2020. Its first published GitHub release was v0.1.0 in November 2022, and development has continued through later releases that expanded its filtering and trimming strategies. ### Adoption history The project distributes ready-to-use binaries from GitHub Releases and documents installation through Bioconda. The supplied package metadata also records a Homebrew formula, making it available in both bioinformatics-focused and general-purpose package-manager workflows. ### How it is used chopper fits Unix sequencing pipelines by reading FASTQ from standard input and writing accepted reads to standard output. Common invocations set minimum quality and length thresholds, optionally crop or quality-trim reads, and pipe compressed data through gzip or pigz. ### Why package nerds care For package-oriented users, chopper is notable as a small Rust replacement for older Python tooling that preserves stream-based composition while offering standalone release binaries and Bioconda and Homebrew distribution. Its stdin/stdout interface makes it easy to slot into reproducible shell pipelines without project-specific configuration. ### Timeline - 2020: GitHub repository created. - 2022: First GitHub release, v0.1.0. - 2026: v0.13.0 released with split-window support for low-quality splitting. ### Related projects - NanoFilt and NanoLyse are the Python tools whose functionality motivated chopper's Rust implementation. - pigz is recommended in the official README for overlapping FASTQ compression or decompression with chopper's processing. ### Sources - - - - source_facts.package-manager ## Security Notes No matching local secret-handling manifest was found for chopper. Package metadata is still published here so future coverage has a stable package URL. ## Source Database Details - **Source Database:** Homebrew formula API - **Tap:** homebrew/core - **Full Name:** chopper - **Version Scheme:** 0 - **Revision:** 0 - **Head Version:** HEAD - **Bottle Stable Root URL:** - **Deprecated:** no - **Disabled:** no - **Keg Only:** no - **URL Keys:** head, stable ## Related links - [Source-control packages](https://pkg.so/source-control-tools/) - Belongs to a source-control command family. - [Terminal utility packages](https://pkg.so/terminal-utilities/) - Matched terminal and command-line workflow metadata. - [Language runtime packages](https://pkg.so/language-runtime-packages/) - Matched language runtime, compiler, or interpreter metadata. - [Networking and protocol packages](https://pkg.so/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata. - [cmake](https://pkg.so/brew/cmake/) - Build dependency declared by Homebrew. - [rust](https://pkg.so/brew/rust/) - Build dependency declared by Homebrew. - [augustus](https://pkg.so/brew/augustus/) - Shares pkgdb curated category or tags: bioinformatics, cli, genomics, science. - [tabixpp](https://pkg.so/brew/tabixpp/) - Shares pkgdb curated category or tags: bioinformatics, cli, genomics, science. - [bismark](https://pkg.so/brew/bismark/) - Shares pkgdb curated category or tags: bioinformatics, cli, genomics, science. - [mosdepth](https://pkg.so/brew/mosdepth/) - Shares pkgdb curated category or tags: bioinformatics, cli, genomics, science. - [minigraph](https://pkg.so/brew/minigraph/) - Shares pkgdb curated category or tags: bioinformatics, cli, genomics, science. - [salmon](https://pkg.so/brew/salmon/) - Shares pkgdb curated category or tags: bioinformatics, cli, genomics, rust, science. - [oarfish](https://pkg.so/brew/oarfish/) - Shares pkgdb curated category or tags: bioinformatics, cli, long-read-sequencing, rust, science. - [trim-galore](https://pkg.so/brew/trim-galore/) - Shares pkgdb curated category or tags: bioinformatics, cli, fastq, rust, science. - [nanoq](https://pkg.so/brew/nanoq/) - Both packages touch the same language runtime or ecosystem. Shared terms: bioinformatics, cli, fastq, quality, read. ## Combined YAML source View the package source record on GitHub. [combined/chopper.yml](https://github.com/mxcl/pkgdb/blob/main/combined/chopper.yml) ## Sources - pkg.so package database - package-page enrichment - curated package history - package version freshness - pkgdb category and tag curation - package relationship graph - cross-ecosystem install command graph