LEA: An R package for landscape and ecological association studies
Summary Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are pot...
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| Vydané v: | Methods in ecology and evolution Ročník 6; číslo 8; s. 925 - 929 |
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| Hlavní autori: | , , |
| Médium: | Journal Article |
| Jazyk: | English |
| Vydavateľské údaje: |
London
John Wiley & Sons, Inc
01.08.2015
Wiley |
| Predmet: | |
| ISSN: | 2041-210X, 2041-210X |
| On-line prístup: | Získať plný text |
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| Abstract | Summary
Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are potentially involved in local adaptation to environmental conditions through natural selection.
Here, we present the R package LEA that enables users to run ecological association studies from the R command line. The package can perform analyses of population structure and genome scans for adaptive alleles from large genomic data sets. It derives advantages from R programming functionalities to adjust significance values for multiple testing issues and to visualize results.
This note also illustrates the main steps of ecological association studies and the typical use of LEA for analysing data sets based on R commands. |
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| AbstractList | Summary
Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are potentially involved in local adaptation to environmental conditions through natural selection.
Here, we present the R package LEA that enables users to run ecological association studies from the R command line. The package can perform analyses of population structure and genome scans for adaptive alleles from large genomic data sets. It derives advantages from R programming functionalities to adjust significance values for multiple testing issues and to visualize results.
This note also illustrates the main steps of ecological association studies and the typical use of LEA for analysing data sets based on R commands. Summary Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are potentially involved in local adaptation to environmental conditions through natural selection. Here, we present the R package LEA that enables users to run ecological association studies from the R command line. The package can perform analyses of population structure and genome scans for adaptive alleles from large genomic data sets. It derives advantages from R programming functionalities to adjust significance values for multiple testing issues and to visualize results. This note also illustrates the main steps of ecological association studies and the typical use of LEA for analysing data sets based on R commands. Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are potentially involved in local adaptation to environmental conditions through natural selection.Here, we present the R package LEA that enables users to run ecological association studies from the R command line. The package can perform analyses of population structure and genome scans for adaptive alleles from large genomic data sets. It derives advantages from R programming functionalities to adjust significance values for multiple testing issues and to visualize results.This note also illustrates the main steps of ecological association studies and the typical use of LEA for analysing data sets based on R commands. 1. Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are potentially involved in local adaptation to environmental conditions through natural selection. 2. Here, we present the R package LEA that enables users to run ecological association studies from the R command line. The package can perform analyses of population structure and genome scans for adaptive alleles from large genomic data sets. It derives advantages from R programming functionalities to adjust significance values for multiple testing issues and to visualize results. 3. This note also illustrates the main steps of ecological association studies and the typical use of LEA for analysing data sets based on R commands. Based on population genomic and environmental data, genomewide ecological association studies aim at detecting allele frequencies that exhibit significant statistical association with ecological gradients. Ecological association studies can provide lists of genetic polymorphisms that are potentially involved in local adaptation to environmental conditions through natural selection. Here, we present the R package LEA that enables users to run ecological association studies from the R command line. The package can perform analyses of population structure and genome scans for adaptive alleles from large genomic data sets. It derives advantages from R programming functionalities to adjust significance values for multiple testing issues and to visualize results. This note also illustrates the main steps of ecological association studies and the typical use of LEA for analysing data sets based on R commands. |
| Author | Frichot, Eric O'Meara, Brian François, Olivier |
| Author_xml | – sequence: 1 givenname: Eric surname: Frichot fullname: Frichot, Eric organization: TIMC‐IMAG UMR 5525 – sequence: 2 givenname: Olivier surname: François fullname: François, Olivier organization: TIMC‐IMAG UMR 5525 – sequence: 3 givenname: Brian surname: O'Meara fullname: O'Meara, Brian |
| BackLink | https://hal.science/hal-02004815$$DView record in HAL |
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