# Install abpoa with Homebrew, apt, Nix SIMD-based C library for fast partial order alignment using adaptive band. Version 1.5.6 via Homebrew; verified 2026-05-26. Also installable with debian: sudo apt install abpoa. ## Install ```sh sudo av install brew:abpoa ``` Additional install commands: ### macOS - Homebrew (100%): ```sh brew install abpoa ``` Evidence: local Homebrew formula metadata ### Linux - Debian apt (92%): ```sh sudo apt install abpoa ``` Evidence: Debian stable package indexes: abpoa from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz - Nix (92%): ```sh nix profile install nixpkgs#abpoa ``` Evidence: nixpkgs package indexes: pkgs/by-name/ab/abpoa/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1 ## Package facts - **Package key:** brew:abpoa - **Package manager:** Homebrew - **Version:** 1.5.6 - **Source summary:** SIMD-based C library for fast partial order alignment using adaptive band - **Homepage:** - **Repository:** - **Last updated:** 2026-05-26T23:37:46-04:00 - **Generated:** 2026-08-03T19:37:03+00:00 ## Executables - abpoa (alias) ## Install behavior - Bottle: not available ## Freshness - Page generated: 2026-08-03 - Package-manager version: 1.5.6 ## Project history and usage abPOA is a C library and command-line tool for adaptive-banded partial-order alignment, multiple sequence alignment, and consensus generation. Package maintainers care about it because it exposes a performance-sensitive bioinformatics primitive as a small buildable C package with command-line, conda, Homebrew, and Python-facing usage. ### Project history The first GitHub release, v1.0.0, was published on April 15, 2020. The project was described in Bioinformatics later in 2020 as an SIMD-based C library for fast partial order alignment using adaptive banding, and the upstream README presents it as an extended version of partial-order alignment with adaptive banded dynamic programming and SIMD implementation. ### Adoption history The README documents installation via conda and Homebrew, source builds, prebuilt Linux and macOS binaries, and a pyabpoa Python package. The input metadata also shows distribution packaging in Homebrew, Debian, Nix, and Ubuntu, which is typical for bioinformatics tools that need both reproducible workflows and local command-line execution. ### How it is used abPOA accepts FASTA, FASTQ, and gzip-compressed FASTA/FASTQ input, performs sequence-to-graph alignment, emits consensus FASTA by default, and can also emit row-column MSA, GFA graph output, amino-acid consensus, and graph plots. The README documents global, local, and extension alignment modes plus linear, affine, and convex gap penalties. ### Why package nerds care The package is significant because it turns a common long-read consensus and MSA building block into a portable SIMD-aware command-line dependency. Its release notes continue to mention packaging-facing work such as pyproject.toml for pyabpoa and SIMD dispatch. ### Timeline - 2020: First public GitHub release v1.0.0. - 2020: Bioinformatics article published for abPOA. - 2025: v1.5.4 added SIMD dispatch and Python 3.13 installation fixes. - 2026: v1.5.6 added easier incremental MSA and pyproject.toml for pyabpoa. ### Related projects - The README explicitly frames abPOA as an extension of partial-order alignment and references heaviest bundling for consensus generation. It also ships pyabpoa for Python users and connects to Bioconda and Homebrew packaging for workflow installation. ### Sources - - - - input source_facts.package-manager ## Security Notes library-like package without higher-risk signals. - **Geiger risk:** green / low - library-like package without higher-risk signals ## Other Package-Manager Records - Debian apt - abpoa - 1.5.3-1+b4: normalized package name match | Debian stable package indexes: abpoa from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | adaptive banded Partial Order Alignment | https://github.com/yangao07/abPOA - Debian apt - python3-pyabpoa - 1.5.3-1+b4: normalized package name match | Debian stable package indexes: python3-pyabpoa from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | adaptive banded Partial Order Alignment - python3 module | https://github.com/yangao07/abPOA - Nix - abpoa: normalized package name match | nixpkgs package indexes: pkgs/by-name/ab/abpoa/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1 - Ubuntu apt - abpoa - 1.5.1-1build1: normalized package name match | Ubuntu 24.04 LTS package indexes: abpoa from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | adaptive banded Partial Order Alignment | https://github.com/yangao07/abPOA - Ubuntu apt - python3-pyabpoa - 1.5.1-1build1: normalized package name match | Ubuntu 24.04 LTS package indexes: python3-pyabpoa from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | adaptive banded Partial Order Alignment - python3 module | https://github.com/yangao07/abPOA ## Combined YAML source View the package source record on GitHub. [combined/abpoa.yml](https://github.com/mxcl/pkgdb/blob/main/combined/abpoa.yml) ## Sources - pkg.so package database - Geiger risk classifier - curated package history - pkgdb category and tag curation - external package-manager database matches - cross-ecosystem install command graph