What is S2F?
S2F is a command-line tool for performing ab initio protein function prediction in bacteria.
The way S2F obtains the functional labels is by combining an initial annotation (InterPro and HMMer) with function similarity graphs obtained by transference from STRING. The graphs are combined via regression and the initial annotation is then diffused through the graph. Finally, for every pair (protein, GO terms) we obtain the probability of this protein being annotated by that term.
We showcase the performance of S2F by making function prediction on 10 Bacteria. You can explore these results below. These are interactive charts and you can select the metric and the organism to inspect the result.
The S2F paper:
This paper has been highlighted in Nature Machine Intelligence.
Read the comment Combining views for newly sequenced organisms by Yingying Zhang, Shayne D. Wierbowski & Haiyuan Yu
Interactive Results from the paper
Results by organism