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DESeq2 dialog is very similar to ANOVA dialog, both categorical and numeric attributes can be added into the model. Interaction terms can also be added to the model, however, in order to perform contrast of the interaction term, a new attribute that combines the factors of interest should be added, and the contrast can be performed on the new combined attribute ( http://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#interactions).

Another difference in configuration from ANOVA dialog is that, in the Define comparisons page, DESeq2 only allow to select one subgroup name to move it to the right panel while ANOVA allow you to pool multiple subgroups to perform the comparison.

DESeq2 report

The report of DESeq is similar to ANOVA report, each row is a feature, each contrast reports p-value, FDR p-value and fold change in linear scale.