Testing for differential abundance in compositional counts data, with application to microbiome studies
… In Section 6.1 we test for differential abundance using methods that address the compositional
bias in testing, including normalization by the flow-cytometric measurements, as suggested in
Vandeputte et al. (2017). We show that existing approaches can result in spurious discoveries
that have limited replicability, whereas our novel approach provides discoveries that appear
more replicable. … In Section 4.1 we detail our reference selection procedure for data
analysis; in Section 4.2 we present our test for differential abundance, assuming our selected …
bias in testing, including normalization by the flow-cytometric measurements, as suggested in
Vandeputte et al. (2017). We show that existing approaches can result in spurious discoveries
that have limited replicability, whereas our novel approach provides discoveries that appear
more replicable. … In Section 4.1 we detail our reference selection procedure for data
analysis; in Section 4.2 we present our test for differential abundance, assuming our selected …
An additional PDF file with supplementary material containing simulations results for additional competitor methods, further examination of the reference selection procedure, and additional data analyses.
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