To evaluate the generalizability and adaptiveness of the GLM based PSEM, the same modeling strategies were applied to the Illumina MiSeq sequencing data sets. The same genomic sequence context features from Ion Proton modeling were applied to the Illumina MiSeq CAL_A dataset. Similar to the analysis on Ion Proton data set, paired Vuong’s non-nested hypothesis tests were conducted on the 4 candidate distributions, with details summarized in Additional file 5. The test conclusions remained the same except for the NB (model 1) and ZIP (model 2) comparison, where the BIC-corrected Vuong z-statistic is −0.47 resulting in p value = 0.318. Therefore the goodness-of-fit for these two distributions on MiSeq dataset are not significantly different.
