This is the development version of ELViS; for the stable release version, see ELViS.
An R Package for Estimating Copy Number Levels of Viral Genome Segments Using Base-Resolution Read Depth ProfileBioconductor version: Development (3.22)
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, and heatmaps showing multiple types of data with integrative clustering of samples.
Author: Hyo Young Choi [aut, cph] ORCID: 0000-0002-7627-8493 , Jin-Young Lee [aut, cre, cph] ORCID: 0000-0002-5366-7488 , Xiaobei Zhao [ctb] ORCID: 0000-0002-5277-0846 , Jeremiah R. Holt [ctb] ORCID: 0000-0002-5201-5015 , Katherine A. Hoadley [aut] ORCID: 0000-0002-1216-477X , D. Neil Hayes [aut, fnd, cph] ORCID: 0000-0001-6203-7771
Maintainer: Jin-Young Lee <jlee307 at uthsc.edu>
Citation (from within R, entercitation("ELViS")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("ELViS")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ELViS")Follow Installation instructions to use this package in your R session.
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