davemcg/SeeGEM: Integrate 'GEMINI' (and 'peddy') Output into Interactive Html Document

An interactive html document highlighting interesting DNA variants is output with this package. SeeGEM takes data from a 'GEMINI' database (an integrated database framework to annotate and query a vcf) and then decorates the DNA variants by adding hyperlinks and assigning color. Alternatively, a VCF can be used an input, but it cannot be decorated. This is all knit with an included R markdown template into an interactive html document, which can be used in a modern web browser. It is also easy to integrate 'peddy' quality control results into the SeeGEM output to efficiently identify samples which have technical issues.

install.packages("remotes")
remotes::install_github("davemcg/SeeGEM")