diff --git a/R/utility_scripts.R b/R/utility_scripts.R index 74c5fa9..628fc9c 100644 --- a/R/utility_scripts.R +++ b/R/utility_scripts.R @@ -79,6 +79,7 @@ CLRnorm = function(features, zero_threshold) { # From metagenomeSeq # ###################### +# The zero threshold isn't correct here yet, but we're probably removing these calcNormFactors <- function(x, p = cumNormStat(x)) { xx <- x xx[xx == 0] <- NA @@ -182,6 +183,7 @@ CSSnorm = function(features, zero_threshold) { # From edgeR # ############## +# The zero threshold isn't correct here yet, but we're probably removing these .calcFactorQuantile <- function (data, lib.size, p=0.75) # Generalized version of upper-quartile normalization # Mark Robinson and Gordon Smyth