The \*\*\_CNVMetrics\_\*\* package offers multiple quantitative metrics of similarity between copy number profiles. Among these are metrics based on CNV status calls only (amplification/deletion status) or on the level of amplification/deletion. In addition, a visualization tool is provided to explore resulting metrics. ## Citing ## If you use this package for a publication, we would ask you to cite the following: >Belleau P, Deschênes A, Beyaz S et al. CNVMetrics package: Quantifying similarity between copy number profiles \[version 1; not peer reviewed\]. F1000Research 2021, 10:737 (slides) (doi: 10.7490/f1000research.1118704.1) \[F1000Research poster\](http://www.doi.org/10.7490/f1000research.1118704.1) ## Authors ## \[Astrid Deschênes\](http://ca.linkedin.com/in/astriddeschenes "Astrid Deschênes"), \[Pascal Belleau\](http://ca.linkedin.com/in/pascalbelleau "Pascal Belleau"), \[David A. Tuveson\](http://tuvesonlab.labsites.cshl.edu/ "David A. Tuveson") and \[Alexander Krasnitz\](https://www.cshl.edu/research/faculty-staff/alexander-krasnitz/ "Alexander Krasnitz") ## Bioconductor Package ## \[!\[Bioconductor Time\](https://bioconductor.org/shields/years-in-bioc/CNVMetrics.svg)\](https://bioconductor.org/packages/CNVMetrics) The \*\*\_CNVMetrics\_\*\* package is now an official package of \[Bioconductor\](http://bioconductor.org/). The current release can be directly downloaded from their website: \[Current release\](https://bioconductor.org/packages/CNVMetrics) However, all official releases can be downloaded from this site: \[All releases\](https://github.com/KrasnitzLab/CNVMetrics/releases) ## Documentation ## \[CNVMetrics Website\](https://krasnitzlab.github.io/CNVMetrics/) \[CNVMetrics Get Started\](https://krasnitzlab.github.io/CNVMetrics/articles/CNVMetrics.html) ## Installation ## To install this package from \[Bioconductor\](https://bioconductor.org/packages/CNVMetrics), start R (version "4.2") and enter: if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("CNVMetrics") To install the latest version accessible using the \[devtools\](https://cran.r-project.org/web/packages/devtools/index.html) package: ## Load required package library(devtools) ## Install the latest version of CNVMetrics devtools::install\_github('KrasnitzLab/CNVMetrics') ## License ## This package and the underlying \*\*\_CNVMetrics\_\*\* code are distributed under the Artistic license 2.0\. You are free to use and redistribute this software. For more information on Artistic 2.0 License see \[http://opensource.org/licenses/Artistic-2.0\](http://opensource.org/licenses/Artistic-2.0) ## Bugs/Feature requests ## \[Please contact us\](https://github.com/KrasnitzLab/CNVMetrics/issues) for bug fixes or with feature requests. Thanks!
