qiime/qiime — pull request #1235 by ggloor (2013-11-30 03:24:51+00:00)
Title: Addition of ALDEx2 R code and documentation to QIIME 

ALDEx2 uses Dirichlet Monte-Carlo replicates to estimate technical variance in each feature generated by high throughput sequencing of RNA-seq, tag-sequencing, meta-genomic sequencing, etc. Each MC replicate is center-log ratio transformed following the advice on compositional data of Aitchison (1986) and used for between condition t-tests and fdr rate calculation. The Expected values of p and fdr are reported in the end. This approach is generally useful for compositional data of this type and identifies consistenly different features between conditions. A readme file is included in the doc directory.