R/melonnpan_training_data.R

In biobakery/melonnpan: Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolite Profiles

#' Normalized gene family abundances in the 
#' PRISM dataset (Franzosa et al., 2019).
#' 
#' Normalized gene family abundance used for 
#' MelonnPan training (Mallick et al., 2019).
#'
#' @docType data
#'
#' @usage data(melonnpan.training.data)
#'
#' @format A data frame of normalized gene familty abundances, 
#' as described in Mallick et al. (2019), with subjects in rows and 
#' UniRef90 IDs in columns.
#' 
#' @references Franzosa EA et al. (2019). Gut microbiome structure and 
#' metabolic activity in inflammatory bowel disease. Nature Microbiology 4(2):293-305.
#'
#' @references Mallick H, Franzosa EA, McIver LJ, Banerjee S, Sirota-Madi A, 
#' Kostic AD, Clish CB, Vlamakis H, Xavier R, Huttenhower C (2019). Predictive 
#' metabolomic profiling of microbial communities using amplicon or 
#' metagenomic sequences. Nature Communications 10(1):3136-3146.
#' 
"melonnpan.training.data"