Schramm Chaim A, Olubo Simone, Douek Daniel C
Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, 20892, USA.
bioRxiv. 2025 May 8:2025.05.02.651960. doi: 10.1101/2025.05.02.651960.
Advances in sequencing technology have made it possible to capture complex immunogenetic loci at a scale that exceeds the capacity for manual annotation. Here we present the Annotator of Loci for ImmunoGlobulins and T cell Receptors (ALIGaToR), an automated pipeline to transfer genetic annotations from a known reference to a novel genomic assembly. We show that ALIGaToR accurately reproduces manually curated annotations and is capable of transferring labels even between distantly related species. Code and documentation for ALIGaToR, including a script reproducing all analyses in this paper, are available at https://github.com/scharch/aligator.
测序技术的进步使得捕获复杂的免疫遗传位点成为可能，其规模超出了人工注释的能力范围。在此，我们展示了免疫球蛋白和T细胞受体基因座注释工具（ALIGaToR），这是一种将遗传注释从已知参考转移到新基因组组装的自动化流程。我们表明，ALIGaToR能够准确再现人工策划的注释，甚至能够在亲缘关系较远的物种之间转移标签。ALIGaToR的代码和文档，包括重现本文所有分析的脚本，可在https://github.com/scharch/aligator获取。
