Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.8K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.8K
Friedman Two-way Analysis of Variance by Ranks01:21

Friedman Two-way Analysis of Variance by Ranks

243
Friedman's Two-Way Analysis of Variance by Ranks is a nonparametric test designed to identify differences across multiple test attempts when traditional assumptions of normality and equal variances do not apply. Unlike conventional ANOVA, which requires normally distributed data with equal variances, Friedman's test is ideal for ordinal or non-normally distributed data, making it particularly useful for analyzing dependent samples, such as matched subjects over time or repeated measures...
243
Genetic Variation01:25

Genetic Variation

327
Genetic variation is the diversity in DNA sequences found among individuals of the same species. This diversity is crucial for a species' survival because it helps organisms adapt to environmental changes. Genetic variation begins with fertilization, where an egg and sperm cell merge. Each of these cells carries 23 chromosomes, up to 46 in the fertilized egg. Chromosomes are long DNA strands that contain genes, the basic units of heredity.
Genes exist in different versions called alleles,...
327
Pedigree Analysis01:35

Pedigree Analysis

84.5K
Overview
84.5K
Interpreting R Charts01:22

Interpreting R Charts

86
R chart, or range chart, is a fundamental tool in statistical process control used to monitor the variability within a process. It complements the X-bar (x̄) chart by focusing on the range of the data, rather than individual values, providing a clear picture of the process dispersion over time.
An R chart plots the range of subsets of measurements collected from a process. Each point on the chart represents the range—defined as the difference between the maximum and minimum...
86
Mutation, Gene Flow, and Genetic Drift01:09

Mutation, Gene Flow, and Genetic Drift

58.6K
In a population that is not at Hardy-Weinberg equilibrium, the frequency of alleles changes over time. Therefore, any deviations from the five conditions of Hardy-Weinberg equilibrium can alter the genetic variation of a given population. Conditions that change the genetic variability of a population include mutations, natural selection, non-random mating, gene flow, and genetic drift (small population size).
58.6K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Integrative GWAS and transcriptomic analyses reveal markers and candidate genes associated with resistance to <i>Botrytis cinerea</i> fruit rot in blueberry.

Horticulture research·2026
Same author

Overcoming breeding barriers with genome editing in autopolyploid crops.

BMC plant biology·2026
Same author

Genome association of carbohydrate metabolites provides new insights toward functional breeding in coffee.

The plant genome·2026
Same author

Using genomic selection to examine subgenome dominance and epistasis in allopolyploid strawberry.

The plant genome·2026
Same author

Interspecific hybridization history of <i>Vaccinium</i> berry crops and potential in wild relatives.

Horticulture research·2025
Same author

Genomic insights into population structure and predictive breeding for climate-resilient coffee.

Heredity·2025

Related Experiment Video

Updated: Jul 22, 2025

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
08:03

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

2.2K

AGHmatrix: genetic relationship matrices in R.

Rodrigo R Amadeu1, Antonio Augusto F Garcia2, Patricio R Munoz3

  • 1Bayer U.S.-Crop Science, Chesterfield, MO, United States.

Bioinformatics (Oxford, England)
|July 20, 2023
PubMed
Summary
This summary is machine-generated.

The AGHmatrix R package constructs genetic relationship matrices from pedigree and genomic data. This tool aids in understanding gene influence on traits and population dynamics for geneticists and ecologists.

More Related Videos

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
10:40

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Published on: December 22, 2017

10.5K
Divergence of Root Microbiota in Different Habitats based on Weighted Correlation Networks
09:49

Divergence of Root Microbiota in Different Habitats based on Weighted Correlation Networks

Published on: September 25, 2021

4.4K

Related Experiment Videos

Last Updated: Jul 22, 2025

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
08:03

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

2.2K
Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
10:40

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Published on: December 22, 2017

10.5K
Divergence of Root Microbiota in Different Habitats based on Weighted Correlation Networks
09:49

Divergence of Root Microbiota in Different Habitats based on Weighted Correlation Networks

Published on: September 25, 2021

4.4K

Area of Science:

  • Genetics
  • Ecology
  • Bioinformatics

Background:

  • Understanding genetic relationships is crucial for geneticists and ecologists.
  • These relationships inform studies on phenotypic variation, fitness, and population dynamics.

Purpose of the Study:

  • Introduce AGHmatrix, an R package for constructing genetic relationship matrices.
  • Facilitate the estimation of genetic relationships using pedigree and molecular marker data.

Main Methods:

  • The AGHmatrix package constructs pedigree (A), molecular marker (G), and combined (H) matrices.
  • It supports any ploidy level and includes functions for marker filtering and pedigree error checking.
  • Relationship matrices can be computed from pedigree, genomic data, or a combination of both.

Main Results:

  • AGHmatrix enables the creation of A, G, and H matrices for relationship estimation.
  • The software handles diverse ploidy levels and offers tools for data quality control.
  • Outputs are applicable to genomic prediction and genome-wide association studies.

Conclusions:

  • AGHmatrix provides a robust R package for calculating genetic relationships.
  • Its functionalities support advanced genetic analyses in various biological contexts.