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14 changes: 7 additions & 7 deletions R/Lcb.R
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Original file line number Diff line number Diff line change
@@ -1,12 +1,12 @@
#' LRtestBias
#'
#' Logistic regression to check bias
#' Logistic regression to check bias #### Logistic regression from ?? to ?? to check the bias from exon length
#'
#' @param jscs_genewise_object gene based table returned
#' from ReformatData and MakeGeneWiseTable_JunctionSeq
#' @param genewise.pvalue whether you use smallest p value or geneWisePadj
#' @param sig.threshold threshold to define differential gene list
#' @param type whether you are interested in exon or splicing junction
#' @param jscs_genewise_object gene based table returned #### ?? The table of genes and their XXYY features ？？
#' from ReformatData and MakeGeneWiseTable_JunctionSeq #### from ReformatData function and YY function
#' @param genewise.pvalue whether you use smallest p value or geneWisePadj #### a logical value
#' @param sig.threshold threshold to define differential gene list #### p-value threshold
#' @param type whether you are interested in exon or splicing junction #### exon or splicing junction, based on user's interests
#' @param loc.x indicates x coordinate of p value from logistic regression
#' @param loc.y indicates y coordinate of p value from logistic regression
#' @param y_lim defining the largest number of exons in y axis in boxplot
Expand Down Expand Up @@ -68,4 +68,4 @@ LRtestBias <- function(jscs_genewise_object, genewise.pvalue = "geneWisePadj",

return(re)

}
}