# Installer mafft avec Homebrew, apt, MacPorts, Nix Consultez les chemins d'installation, exécutables, métadonnées et notes de sécurité de mafft pour les workflows d'agents IA. ## installation ```sh sudo av install brew:mafft ``` Commandes d'installation supplémentaires: ### macOS - Homebrew (100%): ```sh brew install mafft ``` Preuve: local Homebrew formula metadata - MacPorts (94%): ```sh sudo port install mafft ``` Preuve: MacPorts ports tree: science/mafft/Portfile from https://api.github.com/repos/macports/macports-ports/git/trees/master?recursive=1 ### Linux - Debian apt (92%): ```sh sudo apt install mafft ``` Preuve: Debian stable package indexes: mafft from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz - Nix (92%): ```sh nix profile install nixpkgs#mafft ``` Preuve: nixpkgs package indexes: pkgs/by-name/ma/mafft/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1 ## Faits du paquet - **Clé du paquet:** brew:mafft - **Gestionnaire de paquets:** Homebrew - **Page du gestionnaire de paquets:** - **Version:** 7.526 - **Résumé source:** Multiple alignments with fast Fourier transforms - **Page d'accueil:** - **Dépôt:** - **Docs amont:** - **Licence:** BSD-3-Clause - **Archive source:** - **Généré:** 2026-07-08T18:08:21+00:00 ## exécutables - einsi (cli) - fftns (cli) - fftnsi (cli) - ginsi (cli) - linsi (cli) - mafft (cli) - mafft-distance (cli) - mafft-einsi (cli) - mafft-fftns (cli) - mafft-fftnsi (cli) - mafft-ginsi (cli) - mafft-homologs.rb (cli) - mafft-linsi (cli) - mafft-nwns (cli) - mafft-nwnsi (cli) - mafft-profile (cli) - mafft-qinsi (cli) - mafft-sparsecore.rb (cli) - mafft-xinsi (cli) - nwns (cli) - nwnsi (cli) - einsi (alias) - fftns (alias) - fftnsi (alias) - ginsi (alias) - linsi (alias) - mafft (alias) - mafft-distance (alias) - mafft-einsi (alias) - mafft-fftns (alias) - mafft-fftnsi (alias) - mafft-ginsi (alias) - mafft-homologs.rb (alias) - mafft-linsi (alias) - mafft-nwns (alias) - mafft-nwnsi (alias) - mafft-profile (alias) - mafft-qinsi (alias) - mafft-sparsecore.rb (alias) - mafft-xinsi (alias) - nwns (alias) - nwnsi (alias) ## Comportement d'installation - hook post-installation: non défini - Bouteille: disponible sur arm64_linux, arm64_monterey, arm64_sequoia, arm64_sonoma, arm64_tahoe, arm64_ventura, monterey, sonoma, ventura, x86_64_linux ## Version et fraîcheur - page générée: 2026-07-08 - version du gestionnaire: 7.526 - données locales: OK - dépôt amont: https://mafft.cbrc.jp/alignment/software/ - info: No package-manager update timestamp was available. - info: Release/tag comparison is only available for GitHub repositories. ## Historique du projet et usages MAFFT is a multiple sequence alignment program for amino acid or nucleotide sequences. The official site describes MAFFT version 7 as software for Unix-like operating systems with a range of methods, including accurate L-INS-i for smaller alignments and fast FFT-NS-2 for larger sequence sets. ### Historique du projet MAFFT originated as a fast Fourier transform-based approach to multiple sequence alignment, described in the 2002 Nucleic Acids Research paper cited by the official site. Subsequent official references trace major method and usability improvements through version 5, version 6, version 7, PartTree for large alignments, RNA structural alignment, multithreading, adding unaligned sequences, over-alignment control, large-data workflows, MPI parallelization, and MAFFT-DASH. The official manual documents MAFFT as a Unix-style command-line program with aliases such as `linsi`, `ginsi`, `einsi`, `fftnsi`, `fftns`, `nwns`, and `mafft-profile`, each exposing a different speed/accuracy tradeoff. ### Historique d'adoption MAFFT became a standard bioinformatics command-line package because it covers both routine and high-accuracy multiple sequence alignment workflows. The official site links to web services at EBI, MPI Bioinformatics Toolkit, GenomeNet, SIB MyHits, T-REX, DDBJ WABI, and CIPRES, showing adoption beyond a single downloadable CLI. Package managers matter for MAFFT because alignment tools are commonly installed into reproducible research environments, HPC systems, and workflow managers. The supplied package facts show distribution through Homebrew, Debian, MacPorts, Nix, and Ubuntu, while the official site maintains source, Linux, macOS, and Windows download paths. ### Modes d'utilisation The basic invocation is `mafft input > output` with FASTA input. The official site recommends `mafft-linsi input > output` as an accurate option for up to roughly 200 sequences and `mafft input > output` as a fast option for larger alignments, with `mafft --auto input > output` for automatic strategy selection. The manual organizes MAFFT around algorithm families: accuracy-oriented L-INS-i, G-INS-i, and E-INS-i; speed-oriented FFT-NS and NW-NS variants; PartTree for very large sequence counts; and profile alignment for group-to-group workflows. ### Pourquoi les passionnés de paquets s'y intéressent MAFFT is one of those scientific CLI packages that anchors entire downstream workflows. It matters to package maintainers because it has many executable aliases, platform-specific source/binary packaging, a long citation trail, and users who care about exact version behavior for reproducibility. Its history also illustrates a common bioinformatics packaging pattern: a command-line core, official web services, and many package-manager builds coexisting because researchers need both interactive alignment services and scriptable local installs. ### Chronologie - 2002: Official references cite the original MAFFT fast Fourier transform alignment method in Nucleic Acids Research. - 2005: Official references cite MAFFT version 5 accuracy improvements. - 2007: Official manual updated on Jun 9, 2007. - 2008: Official references cite recent developments outlining version 6. - 2010: Official references cite multithreaded MAFFT. - 2013: Official references cite MAFFT version 7 performance and usability improvements. - 2018: Official references cite MPI parallelization for large-scale alignments. - 2019: Official references cite MAFFT-DASH and the MAFFT online service. - 2024: Official site lists MAFFT 7.526 as the latest version in Apr 2024. ### Related projects - MAFFT is related to ClustalW, T-Coffee, PRRN, GenomeNet alignment services, EBI and MPI MAFFT servers, Jalview, Pfam, BioRuby, Vienna RNA package extensions, MXSCARNA, and ProbConsRNA, many of which are linked or referenced from the official site. ### Sources - - - - source_facts.package-manager ## Notes de sécurité narrow executable package without higher-risk signals. - **Risque Geiger:** vert / faible - narrow executable package without higher-risk signals ## Détails de la base source - **Source Database:** Homebrew formula API - **Tap:** homebrew/core - **Full Name:** mafft - **Version Scheme:** 0 - **Revision:** 0 - **Bottle Stable Root URL:** - **Deprecated:** no - **Disabled:** no - **Keg Only:** no - **URL Keys:** stable ## Autres enregistrements de gestionnaires de paquets - Debian apt - mafft - 7.505-1: normalized package name match | Debian stable package indexes: mafft from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | Multiple alignment program for amino acid or nucleotide sequences | https://mafft.cbrc.jp/alignment/software/ - Nix - mafft: normalized package name match | nixpkgs package indexes: pkgs/by-name/ma/mafft/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1 - Ubuntu apt - mafft - 7.505-1: normalized package name match | Ubuntu 24.04 LTS package indexes: mafft from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | Multiple alignment program for amino acid or nucleotide sequences | https://mafft.cbrc.jp/alignment/software/ - MacPorts - mafft: normalized package name match | MacPorts ports tree: science/mafft/Portfile from https://api.github.com/repos/macports/macports-ports/git/trees/master?recursive=1 ## Liens liés - [Terminal utility packages](https://www.automicvault.com/fr/pkg/terminal-utilities/) - Matched terminal and command-line workflow metadata. - [Networking and protocol packages](https://www.automicvault.com/fr/pkg/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata. - [Scientific computing packages](https://www.automicvault.com/fr/pkg/scientific-computing-tools/) - Matched scientific computing metadata. - [Homebrew utility packages](https://www.automicvault.com/fr/pkg/brew-utility-packages/) - Matched Homebrew package provider. - [abpoa](https://www.automicvault.com/fr/pkg/brew/abpoa/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [diamond](https://www.automicvault.com/fr/pkg/brew/diamond/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [minimap2](https://www.automicvault.com/fr/pkg/brew/minimap2/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [blast](https://www.automicvault.com/fr/pkg/brew/blast/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [bwa](https://www.automicvault.com/fr/pkg/brew/bwa/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [hmmer](https://www.automicvault.com/fr/pkg/brew/hmmer/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [lastz](https://www.automicvault.com/fr/pkg/brew/lastz/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [mummer](https://www.automicvault.com/fr/pkg/brew/mummer/) - Shares av.db curated category or tags: bioinformatics, cli, science, sequence-alignment. - [proteinortho](https://www.automicvault.com/fr/pkg/brew/proteinortho/) - Local package facts share a topical domain. Shared terms: bioinformatics, cli, science, sequence. ## Combined YAML source View the package source record on GitHub. [combined/mafft.yml](https://github.com/automic-vault/db/blob/main/combined/mafft.yml) ## Sources - Nucleus package database - Geiger risk classifier - package-page enrichment - curated package history - package version freshness - av.db category and tag curation - package relationship graph - external package-manager database matches - cross-ecosystem install command graph