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NAR Genomics and Bioinformatics|February 8, 2021
Identity: rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear modelsHani Z Girgis, Benjamin T James, Brian B LuczakNucleic Acids Research|May 3, 2018
MeShClust: an intelligent tool for clustering DNA sequencesBenjamin T James, Brian B Luczak, Hani Z GirgisBriefings in Bioinformatics|December 9, 2017
A survey and evaluations of histogram-based statistics in alignment-free sequence comparisonBrian B Luczak, Benjamin T James, Hani Z GirgisBioinformatics (Oxford, England)|July 10, 2019
Look4TRs: a de novo tool for detecting simple tandem repeats using self-supervised hidden Markov modelsAlfredo Velasco, Benjamin T James, Vincent D Wells, et al.BMC Bioinformatics|July 25, 2015
Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scaleHani Z GirgisBMC Genomics|June 6, 2022
MeShClust v3.0: high-quality clustering of DNA sequences using the mean shift algorithm and alignment-free identity scoresHani Z GirgisBMC Bioinformatics|February 9, 2012
Predicting tissue specific cis-regulatory modules in the human genome using pairs of co-occurring motifsHani Z Girgis, Ivan OvcharenkoBMC Genomics|June 5, 2019
LtrDetector: A tool-suite for detecting long terminal repeat retrotransposons de-novoJoseph D Valencia, Hani Z GirgisNucleic Acids Research|October 5, 2012
MsDetector: toward a standard computational tool for DNA microsatellites detectionHani Z Girgis, Sergey L SheetlinMobile DNA|April 16, 2024
Look4LTRs: a Long terminal repeat retrotransposon detection tool capable of cross species studies and discovering recently nested repeatsAnthony B Garza, Emmanuelle Lerat, Hani Z GirgisPageof 3