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cgmisc: enhanced genome-wide association analyses and visualization.

Marcin Kierczak1, Jagoda Jabłońska2, Simon K G Forsberg3

  • 1Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden, Computational Genetics Section, Department of Clinical Sciences, Swedish University of Agricultural Sciences, Uppsala, Sweden and.

Bioinformatics (Oxford, England)
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Summary

This study introduces cgmisc, an R package for advanced analysis and visualization of genome-wide association studies (GWAS) results. It enhances genomic data exploration and publication-quality figure generation, with specific tools for canine genetics.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Statistical Genetics

Background:

  • High-throughput genotyping and sequencing technologies are crucial for studying complex genetic traits.
  • Genome-wide association studies (GWAS) are increasingly used to identify genetic loci associated with diseases and phenotypes.
  • The R environment is a popular platform for genetic data analysis.

Purpose of the Study:

  • To present cgmisc, an R package designed for enhanced data analysis and visualization of GWAS results.
  • To provide utilities and modules that complement existing GWAS software.
  • To offer advanced tools for genomic data visualization and publication-quality figure generation.

Main Methods:

  • Development of an R package named cgmisc.
  • Implementation of utilities and modules for GWAS data analysis.
  • Integration of advanced visualization tools for genomic data.
  • Inclusion of functions specific to Canis familiaris (domestic dog) data.

Main Results:

  • cgmisc enables enhanced data analysis and visualization of GWAS results.
  • The package offers complementary functionalities to existing GWAS software.
  • Advanced visualization tools aid in the preparation of publication-quality figures.
  • Specific functions cater to the analysis of domestic dog genomic data.

Conclusions:

  • cgmisc provides a valuable resource for researchers conducting GWAS.
  • The package enhances the capabilities of the R environment for genomic data analysis.
  • cgmisc facilitates the interpretation and presentation of GWAS findings, particularly for canine genetics research.