<italic>AncestryPainter</italic> 2.0: Visualizing ancestry composition and admixture history graph

doi:10.1101/2024.04.08.588394

	AncestryPainter 2.0: Visualizing ancestry composition and admixture history graph
	Chen, Shuanghui1,2,3 ; Lei, Chang 1,2; Zhao, Xiaohan 1,2; Pan, Yuwen ; Lu, Dongsheng 4,5; Xu, Shuhua1,2,3
	2024-04-09
状态	已发表
摘要	To effectively depict the results of population genetics studies, it is essential to present ancestry composition and genetic distance. The growing amount of genomic data prompted us to design AncestryPainter 1.0, a Perl program to display the ancestry composition of numerous individuals using a rounded graph. Motivated by the requests of users in practical applications, we updated AncestryPainter to version 2.0 by coding in an R package and improving the layout, providing more options and compatible statistical functions for graphing. In particular, AncestryPainter 2.0 implements a method admixture history graph (AHG) to infer the admixture sequence of multiple ancestry populations, and allows for multiple pie charts at the center of the graph to display the ancestry composition of more than one target population. We also introduced an additional graphing module to visualize genetic distance through radial bars of varying lengths surrounding a core. Visualization functions per se have been enhanced in this update as well. Furthermore, AncestryPainter 2.0 includes two statistical modules to 1) merge ancestry proportion matrices and 2) infer admixture sequences through correlation analyses.
语种	英语
DOI	10.1101/2024.04.08.588394
相关网址	查看原文
出处	bioRxiv
收录类别	PPRN.PPRN
WOS记录号	PPRN:88440176
WOS类目	Genetics & Heredity
资助项目	National Key Research and Development Program of China["23JS1410100","32288101","2023YFC2605400"] ; National Natural Science Foundation of China (NSFC)[32030020]
文献类型	预印本
条目标识符	https://kms.shanghaitech.edu.cn/handle/2MSLDSTB/372925
专题	生命科学与技术学院生命科学与技术学院_特聘教授组_徐书华组生命科学与技术学院_硕士生
通讯作者	Xu, Shuhua
作者单位	1.Fudan Univ, Human Phenome Inst, Zhangjiang Fudan Int Innovat Ctr, State Key Lab Genet Engn, Shanghai 200438, Peoples R China 2.Fudan Univ, Zhongshan Hosp, Transplantat Liver Canc Inst, Sch Life Sci,Ctr Evolutionary Biol, Shanghai 200438, Peoples R China 3.ShanghaiTech Univ, Sch Life Sci & Technol, Shanghai 201210, Peoples R China 4.Chinese Acad Sci, Shanghai Inst Nutr & Hlth, Univ Chinese Acad Sci, Key Lab Computat Biol, Shanghai 200031, Peoples R China 5.Fudan Univ, Minist Educ, Key Lab Contemporary Anthropol, Shanghai 201203, Peoples R China
推荐引用方式 GB/T 7714	Chen, Shuanghui,Lei, Chang,Zhao, Xiaohan,et al. AncestryPainter 2.0: Visualizing ancestry composition and admixture history graph. 2024.