Function logos of structurally aligned tRNA data as calculated by LOGOFUN [36] for two groups of Alphaproteobacteria and overview of tRNA-CIF-based binary phyloclassification.
<p>Function logos generalize sequence logos. They are the sole means by which we predict tRNA Class-Informative Features (CIFs), which form the basis of the scoring schemes of the classifiers reported in this work. A full derivation of the mathematics of function logos is provided in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1003454#pcbi.1003454-Freyhult1" target="_blank">[36]</a>. The tRNA-CIF-based phyloclassifier shown in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1003454#pcbi-1003454-g003" target="_blank">Figure 3A</a> sums differences in heights of features between two function logos for a set of genomically derived tRNAs. Complete source code and data to reproduce the function logos in this figure are in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1003454#pcbi.1003454.s001" target="_blank">Dataset S1</a>.</p
