The badger package implements a hierarchical Bayesian approach for inferring copy number alterations and loss of heterozygosity events from single-cell RNA-seq data based on allele and gene expression patterns.

require(devtools)
devtools::install_github('JEFworks/badger', build_vignettes = FALSE)

We welcome any bug reports, enhancement requests, and other contributions. To submit a bug report or enhancement request, or for general discussions or troubleshooting, please use the badger GitHub issues tracker. For more substantial contributions, please fork this repo, push your changes to your fork, and submit a pull request with a good commit message.

badger is created and maintained by Jean Fan of the Kharchenko Lab at the Department of Biomedical Informatics at Harvard Medical School.