abpoa ☆

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Description:
SIMD-based C library for fast partial order alignment using adaptive band

Type: Formula | Latest Version: 1.5.5@0 | Tracked Since: Dec 17, 2025

Links: Homepage | formulae.brew.sh

Category: Other

Tags: bioinformatics genomics simd alignment c-library

Install: brew install abpoa

About:
abPOA is a SIMD-powered C library designed for high-performance Partial Order Alignment (POA), commonly used for multiple sequence alignment and consensus computation. It leverages vectorized instructions to achieve significant speedups over traditional methods, making it ideal for processing large-scale genomic datasets.

Key Features:

SIMD acceleration (SSE/AVX/NEON) for extreme performance
Adaptive banding strategy to reduce computational complexity
Supports cyclic and directed acyclic graph (DAG) POA
Memory-efficient implementation for large datasets

Use Cases:

Generating consensus sequences from noisy long-read sequencing data (e.g., PacBio, ONT)
Multiple sequence alignment in bioinformatics pipelines
De novo genome assembly polishing

Alternatives:

Spoa – SPOA is a widely used POA implementation, but abPOA offers significantly faster performance via SIMD optimization.
MUSCLE – MUSCLE is a general-purpose aligner, while abPOA is specialized for POA and consensus tasks with higher speed.

License: MIT

Bottles available for: arm64_tahoe, arm64_sequoia, arm64_sonoma, sonoma, arm64_linux, x86_64_linux

Version History

Detected	Version	Rev	Change	Commit
Sep 13, 2025 9:22am		0	VERSION_BUMP	4b88d148