ArticleGenome biology2025
KegAlign: optimizing pairwise alignments with diagonal partitioning.
Article in Genome biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
2 citing papers in PubMed.
- Accelerating minimap2 for whole-genome alignment.Bioinformatics (Oxford, England) · 2026Article
- KegAlign: optimizing pairwise alignments with diagonal partitioning.Genome biology · 2025Article
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Authors and funding
6 authors.
Funding
Abstract
Advances in sequencing and assembly allow the creation of thousands of genome assemblies. However, producing multiple alignments required for their analysis lags behind due to the time-consuming process of pairwise alignment, typically performed by the slow but sensitive tool lastZ. Here, we develop KegAlign, an optimized GPU-enabled pairwise aligner. KegAlign employs a novel diagonal partitioning parallelization strategy and leverages advanced GPU features. It can compute a human/mouse alignment in under 6 h on a GPU-containing node without pre-partitioning, maintaining lastZ-level sensitivity crucial for divergent genomes. KegAlign is available as source code, a Conda package, and a user-friendly Galaxy workflow.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.