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In order to examine our ability to determine population structure based on k-mer frequencies present in a genome, we obtained genome sequence data from samples across human populations. Human population structure has been studied extensively, suggesting that humans consist of five superpopulations (The 1000 Genomes Project Consortium et al., 2015) (Africa, America, Europe, South Asia, East Asia).
Both the results of the simulations and empirical assessment support the feasibility of adopting a CoDA framework for modeling RNA-Seq data. The modeling of CLR-transformed count data using the skew-normal model is justified by the model’s good fit. This means that expression variation can be explicitly associated with the standard deviation parameter of the skew-normal model, rather than through a proxy variable such as the dispersion parameter in the negative binomial or the GAMLSS models.
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