Installation

Weitere Installationsbefehle

macOS

Homebrewverifiziert · 100%

brew install cutadapt

local Homebrew formula metadata

Linux

Debian aptverifiziert · 92%

sudo apt install cutadapt

Debian stable package indexes · cutadapt · Quelle: deb.debian.org

Überblick

Paketzusammenfassung

Removes adapter sequences from sequencing reads

Projektlinks

Befehle und Aliase

cutadapt

Verlauf

Projektgeschichte und Nutzung

Cutadapt is a bioinformatics command-line tool for finding and removing adapter sequences, primers, poly-A tails, and other unwanted sequence from high-throughput sequencing reads. Its documentation presents trimming as a routine cleanup step for small-RNA, amplicon, and other sequencing workflows.

Projektgeschichte

The project documentation says Cutadapt development began at TU Dortmund University in Prof. Sven Rahmann's group and is now developed within NBIS, the National Bioinformatics Infrastructure Sweden. The documentation copyright begins in 2010, and the changelog records early public releases starting with v0.1 in September 2010.

Adoptionsgeschichte

Cutadapt became part of the standard sequencing-preprocessing toolbox because it solves a common, format-heavy cleanup problem with a scriptable CLI. The official README links to PyPI, source code, documentation, and a Galaxy platform wrapper, and its badges point to Python packaging and Bioconda distribution.

Wie es verwendet wird

The tool is normally used in pipelines before alignment or downstream analysis: users provide FASTQ/FASTA reads and adapter or primer patterns, then ask Cutadapt to trim, filter, modify, demultiplex, and report results. Its changelog shows long-running attention to paired-end reads, JSON reports, demultiplexing, compression speed, Python version support, and reproducible output.

Warum Paket-Nerds sich dafür interessieren

Cutadapt is package-manager significant because it bridges Python packaging, bioinformatics channels, and Unix CLI workflows. It is both a Python package and a command-line executable, with stable documentation, a citation, and a long changelog that makes downstream packaging and reproducibility work tractable.

Zeitleiste

2010: v0.1 appears in the official changelog.
2011: v1.0 released, according to the changelog.
2012: Public GitHub repository created.
2019: v2.0 released with documented backward-incompatible changes.
2024: v5.0 released with demultiplexing behavior changes and performance-related defaults.
2025: v5.2 documented in the stable changelog.

Related projects

The official README links Cutadapt to PyPI, Bioconda packaging, Galaxy's tools-iuc wrapper, and its Read the Docs documentation.

Quellen

Sicherheitslage

Risikostufe: grün

narrow executable package without higher-risk signals.

Risikoklassifikator

grün Risiko · niedrig Konfidenz · appliance

Warum

narrow executable package without higher-risk signals

Signale

metadata:no-higher-risk-signals

Installationsverhalten

In den Formelmetadaten ist kein Homebrew-Post-install-Hook erfasst.
Homebrew-Bottle-Metadaten sind für 6 Plattformziele verfügbar.
Installiert mit 1 Laufzeitabhängigkeiten.

Empfohlene Prüfung

Prüfe vor unbeaufsichtigter Agent-Nutzung, ob das Tool Klartext-Credentials liest, Remote-Zustand schreibt, Artefakte veröffentlicht oder Plugins ausführt.

Executables

Installierte Executables

Befehl	Art	Sichtbarkeit	Hinweis
`cutadapt`	cli	globales Executable

Aktualität

Version und Aktualität

Diese Signale trennen das Alter der Seitengenerierung, Aktivität des Paketmanagers und Upstream-Release-Vergleich. Versionsrückstand wird nur gemeldet, wenn eine Evidenz-URL und vergleichbare Versionen vorhanden sind.

Seite generiert2026-07-08

Manager-Version5.2

Manager aktualisiert2026-05-04

lokale DatenOK

Upstreamnot checked

neueste erkannte Versionnicht erkannt

https://github.com/marcelm/cutadapt

InfoNo cached GitHub release or tag data was available.https://github.com/marcelm/cutadaptnone Konfidenz

Installationsmetadaten

Paketmetadaten

Paketschlüssel	brew:cutadapt
Version	5.2
Paketmanager	Homebrew
Paketmanager-Seite	https://formulae.brew.sh/formula/cutadapt
Homepage	https://cutadapt.readthedocs.io
Repository	https://github.com/marcelm/cutadapt
Upstream-Dokumentation	https://cutadapt.readthedocs.io/
Lizenz	MIT
Quellarchiv	https://github.com/marcelm/cutadapt.git
Zuletzt aktualisiert	2026-05-04T20:29:09Z
Pulse	updated
Abhängigkeiten	python@3.14
Bottle	verfügbar (auf arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux)
Homebrew post-install	nicht definiert
Dienst	keiner deklariert

Registry-Fakten

Details aus der Quelldatenbank

Source Database	Homebrew formula API
Tap	homebrew/core
Full Name	cutadapt
Version Scheme	0
Revision	0
Bottle Stable Root URL	https://ghcr.io/v2/homebrew/core
Deprecated	no
Disabled	no
Keg Only	no
URL Keys	stable

Source-Datenbank-Treffer

Andere Paketmanager-Einträge

Treffer stammen aus externen Paketmanager-Indizes und bleiben von lokalen Automic-Vault-Paketlinks getrennt.

Debian apt95%

cutadapt 4.7-2

Clean biological sequences from high-throughput sequencing reads

https://cutadapt.readthedocs.io/

sudo apt install cutadapt

Section: science
Architecture: all
Source Package: python-cutadapt
2 Abhängigkeiten
normalized package name match
Abgeglichen nach: Cutadapt

Debian stable package indexes · deb.debian.org · Debian stable package indexes: cutadapt from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz

Ubuntu apt95%

cutadapt 4.4-1build2

Clean biological sequences from high-throughput sequencing reads

https://cutadapt.readthedocs.io/

sudo apt install cutadapt

Section: universe/science
Architecture: all
Source Package: python-cutadapt
2 Abhängigkeiten
normalized package name match
Abgeglichen nach: Cutadapt

Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: cutadapt from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz

Paketgraph

Links stammen aus dem lokalen Paketbeziehungsgraph, Ergänzungen, Abhängigkeitskanten, Ecosystem-Matches und Paket-Hub-Mitgliedschaft.

Quellspur

Aus Repository-Daten generiert

Diese Seite wird von av-web aus dem privaten Paket-SQLite-Artefakt bereitgestellt, das scripts/generate-pkg-sqlite.py erstellt.

Combined YAML source

View the package source record on GitHub.

combined/cutadapt.yml

Verwendete Quellen

Geiger risk classifier
Nucleus package database
av.db category and tag curation
cross-ecosystem install command graph
curated package history
external package-manager database matches
package relationship graph
package version freshness
package-page enrichment

cutadapt mit Homebrew, apt installieren