pophelper: an R package and web app to analyse and visualize population structure

The pophelper r package and web app are software tools to aid in population structure analyses. They can be used for the analyses and visualization of output generated from population assignment programs such as admixture, structure and tess. Some of the functions include parsing output run files to...

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Vydané v:Molecular ecology resources Ročník 17; číslo 1; s. 27 - 32
Hlavný autor: Francis, R. M.
Médium: Journal Article
Jazyk:English
Vydavateľské údaje: England Wiley Subscription Services, Inc 01.01.2017
Predmet:
ADMIXTURE
Biostatistics - methods
CLUMPP
Computer Graphics
computer software
data analysis
DISTRUCT
Genetics, Population
Internet
Population
Population structure
Software
STRUCTURE
TESS
clumpp
distruct
admixture
population structure
structure
tess
ISSN:1755-098X, 1755-0998, 1755-0998
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Popis
Shrnutí:The pophelper r package and web app are software tools to aid in population structure analyses. They can be used for the analyses and visualization of output generated from population assignment programs such as admixture, structure and tess. Some of the functions include parsing output run files to tabulate data, estimating K using the Evanno method, generating files for clumpp and functionality to create barplots. These functions can be streamlined into standard r analysis workflows. The latest version of the package is available on github (https://github.com/royfrancis/pophelper). An interactive web version of the pophelper package is available which covers the same functionalities as the r package version with features such as interactive plots, cluster alignment during plotting, sorting individuals and ordering of population groups. The interactive version is available at http://pophelper.com/.
Bibliografia:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
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ISSN:1755-098X
1755-0998
1755-0998
DOI:10.1111/1755-0998.12509