pppBenchmark

pppBenchmark provides a large-scale benchmarking study of 17 state-of-the-art PPPs. A multi-faceted evaluation strategy is proposed that can be used as a gold standard for promoter prediction evaluation, allowing authors of promoter prediction software to compare their method to existing methods in a proper way. This evaluation strategy is subsequently used to compare the chosen promoter predictors and an in-depth analysis on predictive performance, promoter class specificity, overlap between predictors, and positional bias of the predictions is conducted.