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Related Experiment Videos

Pedigree-drawing with R and graphviz.

Jing Hua Zhao1

  • 1MRC Epidemiology Unit, Strangeways Research Laboratory Cambridge CB1 8RN, UK. jinghua.zhao@mrc-epid.cam.ac.uk

Bioinformatics (Oxford, England)
|February 21, 2006
PubMed
Summary

This study introduces two R functions, plot.pedigree (kinship) and pedtodot (gap), for efficient pedigree drawing. These tools offer automated, batch processing for creating numerous pedigree diagrams, enhancing genetic research workflows.

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Area of Science:

  • Genetics
  • Bioinformatics
  • Computational Biology

Background:

  • Pedigree analysis is crucial in genetic studies.
  • Interactive software often limits batch processing capabilities.
  • The R statistical environment offers extensibility for bioinformatics tools.

Purpose of the Study:

  • To describe two R functions for automated pedigree diagram generation.
  • To provide alternatives to interactive-only pedigree drawing software.
  • To facilitate the creation of multiple pedigrees efficiently.

Main Methods:

  • Utilized the R programming language.
  • Described the `plot.pedigree` function within the `kinship` package.
  • Described the `pedtodot` function within the `gap` package, noting its dependency on Graphviz.

Main Results:

  • Both functions enable rapid generation of pedigree diagrams.
  • These functions can produce numerous diagrams within a single output file.
  • They serve as efficient, non-interactive alternatives for pedigree visualization.

Conclusions:

  • The `kinship` and `gap` R packages provide valuable tools for geneticists.
  • Automated pedigree drawing enhances the efficiency of genetic data analysis.
  • These functions streamline the visualization of complex family structures in research.

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