adegenet: Exploratory Analysis of Genetic and Genomic Data

Canonical link: https://rscholar.com/pkg/adegenet

Thibaut Jombart • Zhian N. Kamvar • Caitlin Collins • Roman Lustrik • Marie-Pauline Beugin • Brian J. Knaus • Peter Solymos • Vladimir Mikryukov • Klaus Schliep • Tiago Maié • Libor Morkovsky • Ismail Ahmed • Anne Cori • Federico Calboli • RJ Ewing • Frédéric Michaud • Rebecca DeCamp • Alexandre Courtiol • Lindsay V. Clark • Pavel Dimens • View description and downloads View dependencies GitHub project

2007 Published

2.1.10 Version

0 Citations

20 Authors

Referenced by ⇅	Year
HierDpart: Partitioning Hierarchical Diversity and Differentiation Across Metrics and Scales, from Genes to Ecosystems (Version 1.5.0)	2018
AlleleShift: Predict and Visualize Population-Level Changes in Allele Frequencies in Response to Climate Change (Version 1.1-2)	2021
DA: Discriminant Analysis for Evolutionary Inference (Version 1.2.0)	2021
PopGenReport: A Simple Framework to Analyse Population and Landscape Genetic Data (Version 3.1)	2012
RAINBOWR: Genome-Wide Association Study with SNP-Set Methods (Version 0.1.35)	2019
SNPfiltR: Interactively Filter SNP Datasets (Version 1.0.1)	2021
StAMPP: Statistical Analysis of Mixed Ploidy Populations (Version 1.6.3)	2013
adephylo: Exploratory Analyses for the Phylogenetic Comparative Method (Version 1.1-16)	2009
apex: Phylogenetic Methods for Multiple Gene Data (Version 1.0.6)	2015
coreCollection: Core Collection (Version 0.9.5)	2022
dartR.base: Analysing 'SNP' and 'Silicodart' Data - Basic Functions (Version 0.98)	2023
dartR.captive: Analysing 'SNP' Data to Support Captive Breeding (Version 0.75)	2023
dartR.data: Auxiliary Data Package for Our Main Package 'dartR' (Version 1.0.8)	2022
dartR.sexlinked: Analysing SNP Data to Identify Sex-Linked Markers (Version 1.0.5)	2024
dartR.popgen: Analysing 'SNP' and 'Silicodart' Data Generated by Genome-Wide Restriction Fragment Analysis (Version 1.0.0)	2023
dartR.sim: Computer Simulations of 'SNP' Data (Version 0.70)	2023
dartR.spatial: Applying Landscape Genomic Methods on 'SNP' and 'Silicodart' Data (Version 0.78)	2023
dartR: Importing and Analysing 'SNP' and 'Silicodart' Data Generated by Genome-Wide Restriction Fragment Analysis (Version 2.9.7)	2017
graph4lg: Build Graphs for Landscape Genetics Analysis (Version 1.8.0)	2019
hierfstat: Estimation and Tests of Hierarchical F-Statistics (Version 0.5-11)	2004
memgene: Spatial Pattern Detection in Genetic Distance Data Using Moran's Eigenvector Maps (Version 1.0.2)	2014
mmod: Modern Measures of Population Differentiation (Version 1.3.3)	2012
outbreaker2: Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data (Version 1.1.3)	2017
pegas: Population and Evolutionary Genetics Analysis System (Version 1.3)	2009
polyRAD: Genotype Calling with Uncertainty from Sequencing Data in Polyploids and Diploids (Version 2.0.0)	2018
polysat: Tools for Polyploid Microsatellite Analysis (Version 1.7-7)	2010
poppr: Genetic Analysis of Populations with Mixed Reproduction (Version 2.9.6)	2013
quiddich: QUick IDentification of DIagnostic CHaracters (Version 1.0.0)	2019
sequoia: Pedigree Inference from SNPs (Version 2.11.2)	2017
snpAIMeR: Assess the Diagnostic Power of Genomic Marker Combinations (Version 2.1.1)	2023
treespace: Statistical Exploration of Landscapes of Phylogenetic Trees (Version 1.1.4.3)	2017
vcfR: Manipulate and Visualize VCF Data (Version 1.15.0)	2016
wingen: Continuous Mapping of Genetic Diversity (Version 2.1.2)	2024

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