How to install deconstructSigs in R

Question

[Zhenyu Zhang]

Since deconstructSigs has been removed from CRAN, as well as some of its dependencies. We have trouble installing this package, mainly to find the write R version and package versions.

Does anyone have any suggestion? If you have this running, do you mind sharing your session.info? Thanks.

[yura.grabovska]

it has a github repo, can you not pull from there? https://github.com/raerose01/deconstructSigs

Answer 1

[ATpoint]

Even if officially removed from CRAN, you can always install from their GitHub. In my case missing dependencies were BSgenome and BSgenome.Hsapiens.UCSC.hg19:

deps <- c("BSgenome", "BSgenome.Hsapiens.UCSC.hg19")
BiocManager::install(c(deps, "cran/deconstructSigs"))