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Advances in post-processing methods for multiple sequence alignment
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DOI：10.3389/fgene.2025.1722317.png)
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Abstract
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The reliability of multiple sequence alignment (MSA) results directly determines the credibility of the conclusions drawn from biological research. However; MSA is inherently an NP-hard problem; making it theoretically impossible to guarantee a globally optimal solution. Consequently; in addition to developing more efficient alignment algorithms; improving the quality of initial alignments through post-processing optimization has become an important strategy for enhancing the overall alignment accuracy. Although post-processing methods have shown potential in improving alignment accuracy; currently; there is a lack of systematic reviews and summaries. In this review; we provide a systematic overview of the development and key research ideas of MSA post-processing methods over the past 3 decades and outline potential directions for future research.
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