<!-- badges: start --> [](https://opensource.org/licenses/Apache-2.0) [](https://codecov.io/gh/krasnitzlab/RAIDS) [](https://github.com/krasnitzlab/RAIDS/actions/workflows/check-bioc.yaml) <!-- badges: end --> # Accurate genetic ancestry inference from cancer-derived molecular data with **RAIDS** # The Robust Ancestry Inference using Data Synthesis (**RAIDS**) package enables accurate and robust inference of genetic ancestry from various types of molecular data, including whole-genome, whole-exome, targeted gene panels and RNA sequences, as described in our manuscript. Our tools retain high accuracy in presence of somatic alterations, such as those caused by cancer. **This code and analysis pipeline were designed and developed for the following publication:** > Pascal Belleau, Astrid Deschênes, Nyasha Chambwe, David A. Tuveson, Alexander Krasnitz; Genetic Ancestry Inference from Cancer-Derived Molecular Data across Genomic and Transcriptomic Platforms. Cancer Res 1 January 2023; 83 (1): 49–58. https://doi.org/10.1158/0008-5472.CAN-22-0682 ## Authors ## [Pascal Belleau](http://ca.linkedin.com/in/pascalbelleau "Pascal Belleau"), [Astrid Desch&ecirc;nes](https://www.linkedin.com/in/astriddeschenes "Astrid Desch&ecirc;nes"), [David A. Tuveson](https://tuvesonlab.labsites.cshl.edu/) and [Alexander Krasnitz](https://www.cshl.edu/research/faculty-staff/alexander-krasnitz/ "Alexander Krasnitz") ## Citing ## If you use the **RAIDS** package for a publication, we would ask you to cite the following: > Pascal Belleau, Astrid Deschênes, Nyasha Chambwe, David A. Tuveson, Alexander Krasnitz; Genetic Ancestry Inference from Cancer-Derived Molecular Data across Genomic and Transcriptomic Platforms. Cancer Res 1 January 2023; 83 (1): 49–58. https://doi.org/10.1158/0008-5472.CAN-22-0682 ## Bioconductor Package ## [](https://bioconductor.org/packages/RAIDS) The **RAIDS** package is now an official package of [Bioconductor](http://bioconductor.org/). The current Bioconductor release can be directly downloaded from their website: [Current release](https://bioconductor.org/packages/RAIDS) ## Installation ## To install this package from [Bioconductor](https://bioconductor.org/packages/RAIDS), start R (version "4.3" or later) and enter: if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("RAIDS") To install the latest version accessible from Github, the [devtools](https://cran.r-project.org/web/packages/devtools/index.html) package is required. ## Load required package library(devtools) ## Install the latest version of RAIDS devtools::install_github('KrasnitzLab/RAIDS') ## Documentation ## [RAIDS Website](https://krasnitzlab.github.io/RAIDS/) [RAIDS Get Started](https://krasnitzlab.github.io/RAIDS/articles/RAIDS.html) ## License ## This package and the underlying **RAIDS** code are distributed under the Apache-2.0 license. You are free to use and redistribute this software. For more information on Apache-2.0 License see [https://opensource.org/licenses/Apache-2.0](https://opensource.org/licenses/Apache-2.0) ## Maintainer [Pascal Belleau](https://github.com/belleau/ "Pascal Belleau") ## Bugs/Feature requests ## [Please contact us](https://github.com/KrasnitzLab/RAIDS/issues) for bug fixes or with feature requests. Thanks!