R/data-soybean_cn_metrics.R

In lrutter/bigPint: BIG multivariate data Plotted INTeractively

#' Normalized soybean cotyledon metrics
#'
#' @name soybean_cn_metrics
#' @title Normalized soybean cotyledon metrics
#' @description This data contains metrics for normalized RNA-sequencing read
#' counts from soybean cotyledon across three time stages of development. 
#' Early stage cotyledons were collected four days after planting and were 
#' green but closed. Middle stage cotyledons were collected while green and 
#' open, soon after the plant generated its first set of unifoliate leaves. 
#' Late stage cotyledons were collected immediately after the initiation of 
#' yellowing and shrinking. The metrics include the log fold change, log 
#' counts per million, likelihood ratio, p-values, and FDR values for all 
#' genes and all pairwise combinations of treatment groups.
#' @docType data
#' @format a \code{RData} instance, 1 list per treatment group combination 
#' and 1 row per gene 
#' @details \itemize{
    #' \item ID gene name
    #' \item logFC log fold change
    #' \item logCPM log counts per million
    #' \item LR likelihood ratio
    #' \item PValue p-value
    #' \item FDR FDR value
    #' }
#' @docType data
#' @keywords datasets
#' @format A nested list of length 3. Each list contains the metrics for the 
#' 73,320 genes for one treatment group combination.
#' @seealso \code{\link{soybean_cn}} for information about the treatment 
#' groups
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