mapmixture: An R package and web app for spatial visualisation of admixture and population structure

IF 5.5 1区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Molecular Ecology Resources Pub Date : 2024-02-23 DOI:10.1111/1755-0998.13943

Tom L. Jenkins

{"title":"mapmixture: An R package and web app for spatial visualisation of admixture and population structure","authors":"Tom L. Jenkins","doi":"10.1111/1755-0998.13943","DOIUrl":null,"url":null,"abstract":"The mapmixture R package and interactive web app are tools to aid visualisation of admixture and population structure in geographic space. The purpose of mapmixture is to enable and encourage molecular ecologists, and in particular population geneticists and phylogeneticists, to plot their admixture, ancestry or assignment results on a map when location information is available. mapmixture accepts data in the format typically generated by admixture analyses and visualises proportions to each genetic cluster per site as pie charts on a projected (optional) map. Combining this site-based map presentation approach with the routine individual-based presentation of admixture (structure) barplots will enhance interpretation of genetic-geographic patterns. Additionally, in the context of science communication, this enables clearer transfer of spatial genetic information to readers or listeners, and especially to audiences that do not have a background in genetics but who are able to use the genetic information as evidence in conservation management. The latest version of mapmixture is available on GitHub (https://github.com/tom-jenkins/mapmixture), which details installation instructions and examples of how to use the package and interactive web app.","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":"24 4","pages":""},"PeriodicalIF":5.5000,"publicationDate":"2024-02-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1755-0998.13943","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Molecular Ecology Resources","FirstCategoryId":"99","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13943","RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

The mapmixture R package and interactive web app are tools to aid visualisation of admixture and population structure in geographic space. The purpose of mapmixture is to enable and encourage molecular ecologists, and in particular population geneticists and phylogeneticists, to plot their admixture, ancestry or assignment results on a map when location information is available. mapmixture accepts data in the format typically generated by admixture analyses and visualises proportions to each genetic cluster per site as pie charts on a projected (optional) map. Combining this site-based map presentation approach with the routine individual-based presentation of admixture (structure) barplots will enhance interpretation of genetic-geographic patterns. Additionally, in the context of science communication, this enables clearer transfer of spatial genetic information to readers or listeners, and especially to audiences that do not have a background in genetics but who are able to use the genetic information as evidence in conservation management. The latest version of mapmixture is available on GitHub (https://github.com/tom-jenkins/mapmixture), which details installation instructions and examples of how to use the package and interactive web app.

Abstract Image

查看原文本刊更多论文

mapmixture：用于空间可视化混杂和种群结构的 R 软件包和网络应用程序。

mapmixture R软件包和交互式网络应用程序是帮助可视化地理空间中的混合和种群结构的工具。mapmixture 可接受通常由混杂分析生成的格式数据，并在投影（可选）地图上以饼图的形式直观显示每个地点每个基因群的比例。将这种基于地点的地图展示方法与基于个体的掺杂（结构）柱状图的常规展示方法相结合，将增强对遗传地理模式的解读。此外，在科学传播的背景下，这还能将空间遗传信息更清晰地传递给读者或听众，尤其是那些没有遗传学背景，但能够将遗传信息作为保护管理证据的受众。最新版本的 mapmixture 可在 GitHub（https://github.com/tom-jenkins/mapmixture）上下载，其中详细介绍了安装说明以及如何使用软件包和交互式网络应用程序的示例。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Molecular Ecology Resources 生物-进化生物学

CiteScore

15.60

自引率

5.20%

发文量

170

审稿时长

3 months

期刊介绍： Molecular Ecology Resources promotes the creation of comprehensive resources for the scientific community, encompassing computer programs, statistical and molecular advancements, and a diverse array of molecular tools. Serving as a conduit for disseminating these resources, the journal targets a broad audience of researchers in the fields of evolution, ecology, and conservation. Articles in Molecular Ecology Resources are crafted to support investigations tackling significant questions within these disciplines. In addition to original resource articles, Molecular Ecology Resources features Reviews, Opinions, and Comments relevant to the field. The journal also periodically releases Special Issues focusing on resource development within specific areas.