Abstract Regulation of research on microbes that cause disease in humans has historically been focused on taxonomic lists of ‘bad bugs’. However, given our increased knowledge of these pathogens through inexpensive genome sequencing, 5 decades of research in microbial pathogenesis, and the burgeoning capacity of synthetic biologists, the limitations of this... MORE

Abstract R packages are the fundamental units of reproducible code in R, providing a mechanism for distributing user-developed code, documentation, and data. Docker is a virtualization technology that allows applications and their dependencies to be distributed and run reproducibly across platforms. The pracpac package provides an interface to create Docker... MORE

Abstract Microarray processing, which interrogates hundreds of thousands of single nucleotide polymorphisms (SNPs) across the human genome, has recently gained traction in forensics due to its use in forensic genetic genealogy, which is based on analysis using SNPs to compare distant relatives in publicly curated databases for the purposes of... MORE

fiphde was originally created to operationally forecast influenza hospitalizations during the 2021-22 and 2022-23 seasons of the FluSight challenge. The package includes functions for data retrieval, modeling, near-term forecasting, and forecast summarization. Functionality from fiphde has been implemented for other infectious disease forecasting, including the 2022-23 DoD COVID-like illness forecasting... MORE