R/melonnpan_trained_model.R

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

#' Weights from a pre-trained MelonnPan model in the 
#' PRISM dataset (Franzosa et al., 2019).
#' 
#' Weight matrix (or model coefficients) based on MelonnPan training 
#' in the PRISM dataset (Franzosa et al., 2019).
#'
#' @docType data
#'
#' @usage data(melonnpan.trained.model)
#'
#' @format A data frame of model coefficients from a pre-trained MelonnPan model, 
#' as described in Mallick et al. (2019), with 814 UniRef90 IDs 
#' (excluding the intercept) and 80 well-predicted metabolites (unique, labeled).
#' 
#' @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.trained.model"