Admix-kit: an integrated toolkit and pipeline for genetic analyses of admixed populations

Abstract Summary Admixed populations, with their unique and diverse genetic backgrounds, are often underrepresented in genetic studies. This oversight not only limits our understanding but also exacerbates existing health disparities. One major barrier has been the lack of efficient tools tailored f...

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Bibliographic Details
Published in:Bioinformatics (Oxford, England) England), 2024-03, Vol.40 (4)
Main Authors: Hou, Kangcheng, Gogarten, Stephanie, Kim, Joohyun, Hua, Xing, Dias, Julie-Alexia, Sun, Quan, Wang, Ying, Tan, Taotao, Atkinson, Elizabeth G, Martin, Alicia, Shortt, Jonathan, Hirbo, Jibril, Li, Yun, Pasaniuc, Bogdan, Zhang, Haoyu
Format: Article
Language:English
Subjects:
Applications Note
Availability
Genetic analysis
Genetic diversity
Genotype
Genotypes
Phenotype
Phenotypes
Population genetics
Population studies
Populations
Software
Toolkits
Workflow
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Summary:Abstract Summary Admixed populations, with their unique and diverse genetic backgrounds, are often underrepresented in genetic studies. This oversight not only limits our understanding but also exacerbates existing health disparities. One major barrier has been the lack of efficient tools tailored for the special challenges of genetic studies of admixed populations. Here, we present admix-kit, an integrated toolkit and pipeline for genetic analyses of admixed populations. Admix-kit implements a suite of methods to facilitate genotype and phenotype simulation, association testing, genetic architecture inference, and polygenic scoring in admixed populations. Availability and implementation Admix-kit package is open-source and available at https://github.com/KangchengHou/admix-kit. Additionally, users can use the pipeline designed for admixed genotype simulation available at https://github.com/UW-GAC/admix-kit_workflow.
ISSN:1367-4811
1367-4803
1367-4811
DOI:10.1093/bioinformatics/btae148