An article published in MicrobiomeJ presents ZicoSeq: a differential abundance analysis (DAA) tool which remedies the drawbacks of existing methods. Read the paper here:
c). Relaxing the target FDR level, the coverage can go even higher. For some datasets, the coverage could be 100%, meaning that one can always find a DAA tool, which declares a random taxon to be differential. Therefore, it is imperative for the field to reach some consensus about the optimal DAA tool or procedure. To achieve this goal, a comprehensive evaluation, which covers as many biologically relevant scenarios, is critically needed.
To obtain a list of highly confident differential taxa, one natural idea is to use ensembling, i.e., running multiple methods and using consensus to select the differential taxa. We explored the feasibility of this strategy by declaring differential taxa at different consensus levels . Figure Sshows that the ensemble method still could not control the FDR under strong compositional effects unless a very high consensus level was used. However, in this case, the power was very low.
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