Exvar: An R Package for Gene Expression And Genetic Variation Data Analysis And Visualization
RNA sequencing data manipulation workflows are complex and require various skills and tools. This creates the need for user-friendly and integrated genomic data analysis and visualization tools.
We developed a novel R package using multiple Cran and Bioconductor packages to perform gene expression analysis and genetic variant calling from RNA sequencing data. Multiple public datasets, available on the SRA database, were analyzed using the developed package to validate the pipeline for all the supported species.
The developed R package, named "Exvar," includes multiple data analysis functions for preprocessing RNA sequencing FASTQ files, analyzing gene expression, and calling variants (SNP, CNV, and Indels); as well as three data visualization functions integrating interactive Shiny apps for visualizing gene expression, SNP, and CNV data.
Also, it could be used to analyze eight species’ data (Homo sapiens, Mus musculus, Arabidopsis thaliana, Drosophila melanogaster, Danio rerio, Rattus norvegicus, Caenorhabditis elegans, and Saccharomyces cerevisiae).
The Exvar package is available in the project’s GitHub repository (https://github.com/omicscodeathon/Exvar).
