<h1 align="center"> <br> <br> ELViS <br> </h1> ^{<b>R4.3 & Bioc3.18 (Ubuntu & Windows) : </b>} [](https://github.com/hyochoi/ELViS/actions/workflows/check-bioc_3.18.yml) <br> ^{<b>R4.4 & Bioc3.19 (Ubuntu & Windows) : </b>} [](https://github.com/hyochoi/ELViS/actions/workflows/check_bioc.yml) --------------------------- An R Package for ***E***stimating Copy Number ***L***evels of ***Vi***ral Genome ***S***egments Using Base-Resolution Read Depth Profile. <p align="center"> <a href="#description">DESCRIPTION</a> • <a href="#installation">INSTALLATION</a> • <a href="#how-to-use">HOW TO USE</a> • </p> ## DESCRIPTION * Base-resolution copy number analysis of viral genome. Utilizes base-resolution read depth data over viral genome to find copy number segments with two-dimensional segmentation approach. * Provides publish-ready figures, including - histograms of read depths - coverage line plots over viral genome annotated with copy number change events and viral genes - heatmaps showing multiple types of data with integrative clustering of samples. ## INSTALLATION To install this package, start R (version "4.5") and enter: ```{r , echo=TRUE, eval=FALSE} if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("ELViS") ``` ## HOW TO USE Please refer to [vignette](https://jyleebioinfo.github.io/ELViS/).