HebbPlot: an intelligent tool for learning and visualizing chromatin mark signatures. - Hani Z. Girgis; Alfredo Velasco II; Zachary E. Reyes (BMC Bioinform., 2018)

Look4TRs: a de novo tool for detecting simple tandem repeats using self-supervised hidden Markov models. - Alfredo Velasco II; Benjamin T. James; Vincent D. Wells; Hani Z. Girgis (Bioinform., 2020)