R/performance.metrics.R

In OmicsMarkeR: Classification and Feature Selection for 'Omics' Datasets

#' @title Performance Metrics of fs.stability or fs.ensembl.stability object
#' @description This will provide a concise data.frame of confusion matrix 
#' and ROC statistics from the results of \code{fs.stability} or 
#' \code{fs.ensembl.stability}.
#' @param fit.model An fs.stability or fs.ensembl.stability object
#' @param digits How many digits to round values
#' @return Dataframe of performance statistics by model
#' @author Charles E. Determan Jr.
#' @example inst/examples/performance.metrics.R
#' @export

performance.metrics <- function(fit.model,   # fs.stability object
                                digits = max(3, getOption("digits") - 3))
{    
    # need to set class of performance statistics in fs.stability object
    # instead, probably be easiest to simply use the fs.stability results and 
    # draw performance with generic performance.metrics function
    
    assert_is_numeric(digits)
    
    perf <- fit.model$performance
    fit.models <- fit.model$methods
    
    if(length(fit.models) >= 2){
        mult.param <- 
            sapply(fit.models, 
                   function(x) as.character(params(x)[[1]]$parameter))
        out <-
            mapply(perf, 
                   FUN = function(x,y) x[,!colnames(x) %in% y], y = mult.param)
        out <- as.data.frame(out)
        out
    }else{
        perf <- do.call(rbind, perf)
        param <- as.character(params(fit.models)[[1]]$parameter)
        tmp <- perf[,!colnames(perf) %in% param]
        out <- as.data.frame(tmp)
        colnames(out) <- fit.models
        out
    }
}