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LinkageMapView-rendering high-resolution linkage and QTL maps.

Lisa A Ouellette1, Robert W Reid1, Steven G Blanchard1

  • 1Department of Bioinformatics and Genomics, University of North Carolina Charlotte, Kannapolis, NC, USA.

Bioinformatics (Oxford, England)
|October 3, 2017
PubMed
Summary
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LinkageMapView offers a free, open-source R package for high-resolution visualization of genetic linkage and quantitative trait loci (QTL) maps. This tool addresses the need for advanced visualization in genetic studies, integrating seamlessly with existing pipelines.

Area of Science:

  • Genetics
  • Bioinformatics
  • Computational Biology

Background:

  • Genetic linkage maps and quantitative trait loci (QTL) maps are essential for understanding complex traits.
  • Advances in sequencing have increased map density, but visualization tools lag behind.
  • Existing software for linkage map visualization is often not free, open-source, or cross-platform.

Purpose of the Study:

  • To introduce LinkageMapView, a novel R package for high-resolution visualization of genetic linkage and QTL maps.
  • To provide a freely available, open-source, and cross-platform solution for genetic map visualization.
  • To enhance the integration of genetic mapping tools into research workflows.

Main Methods:

  • LinkageMapView is an add-on package for the R statistical programming environment.

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  • It accepts input from R/qtl and standard text/comma-delimited files.
  • The package offers extensive customization options for map generation and annotation.

    • Main Results:

    • LinkageMapView generates high-resolution, publication-ready visualizations of genetic linkage and QTL maps.
    • The package is freely available, open-source, and compatible with multiple platforms.
    • It facilitates linkage group comparisons and annotation of QTL regions.

    Conclusions:

    • LinkageMapView effectively addresses the gap in advanced genetic map visualization tools.
    • Its accessibility and flexibility make it a valuable resource for geneticists and bioinformaticians.
    • The package supports the creation of publication-quality figures for genetic studies.