kalign ☆
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Description:
Fast multiple sequence alignment program for biological sequences
Type: Formula  |  Tracked Since: Dec 28, 2025
Links: Homepage  |  formulae.brew.sh
Category: Other
Tags: bioinformatics alignment genomics cli scientific-computing
Install: brew install kalign
About:
Kalign is a fast and accurate algorithm for multiple sequence alignment, designed to handle large datasets efficiently. It utilizes a progressive alignment strategy combined with a probabilistic model to produce high-quality alignments for protein, DNA, and RNA sequences. Its speed makes it particularly suitable for bioinformatics pipelines requiring rapid processing of extensive sequence data.
Key Features:
  • High-speed alignment algorithm
  • Supports protein, DNA, and RNA sequences
  • Probabilistic alignment model (PCR)
  • Command-line interface for automation
Use Cases:
  • Phylogenetic analysis preparation
  • Genome annotation workflows
  • Protein family characterization
Alternatives:
  • Clustal Omega – Standard tool, generally slower than Kalign for large datasets
  • MAFFT – Offers higher accuracy for some inputs but at a significant computational cost
  • MUSCLE – Balances speed and accuracy, though Kalign is often faster for very large inputs
Version History
Detected Version Rev Change Commit
Sep 12, 2025 1:24pm 0 VERSION_BUMP eb281322
Sep 14, 2024 10:39am 0 VERSION_BUMP 6fa65857
Dec 10, 2023 12:23pm 0 VERSION_BUMP b2b1e370
Dec 10, 2023 11:44am 0 VERSION_BUMP e551ba2c
Dec 13, 2022 5:06pm 0 VERSION_BUMP 3e756458
Dec 13, 2022 5:06pm 0 VERSION_BUMP 78970ce7
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