chopper を Homebrew でインストール

プロジェクトリンク

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• chopper

プロジェクトの歴史

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.

採用の歴史

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.

使われ方

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.

パッケージ好きにとっての重要性

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.

タイムライン

• 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.

ソース

• https://api.github.com/repos/wdecoster/chopper
• https://api.github.com/repos/wdecoster/chopper/releases?per_page=100
• https://github.com/wdecoster/chopper#readme
• source_facts.package-manager