Implement denominator options for clr from ALDEx2, as well as the method that only uses non-zero elements in the denominator of the so-called "robust Aitchison PCA" from Martino2019. Similarly, add an option to calculate the geometric mean (and perhaps other geometric functions) that first restricts to non-zero elements (as in phyloseq's Deseq tutorial)
Implement denominator options for clr from ALDEx2, as well as the method that only uses non-zero elements in the denominator of the so-called "robust Aitchison PCA" from Martino2019. Similarly, add an option to calculate the geometric mean (and perhaps other geometric functions) that first restricts to non-zero elements (as in phyloseq's Deseq tutorial)