#' Preprocessing for further analysis
#'
#' @param seg segmentation data
#' @return preprocessed data
preprocess.hrd<-function(seg){
seg <- seg[!seg[,2] %in% c(paste('chr',c('X','Y','x','y',23,24),sep=''),c('X','Y','x','y',23,24)),]
seg[,1] <- as.character(seg[,1])
if(! all(seg[,8] <= seg[,7]) ){
tmp <- seg
seg[tmp[,8] > tmp[,7],7] <- tmp[tmp[,8] > tmp[,7],8]
seg[tmp[,8] > tmp[,7],8] <- tmp[tmp[,8] > tmp[,7],7]
}
seg <- shrink.seg.ai.wrapper(seg)
return(seg)
}
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