Novel Y-chromosome Short Tandem Repeat Variants Detected Through the Use of Massively Parallel Sequencing. - David H. Warshauer; Jennifer D. Churchill; Nicole Novroski; Jonathan L. King; Bruce Budowle (Genom. Proteom. Bioinform., 2015)

Numt identification and removal with RtN! - August E. Woerner; Jennifer Churchill Cihlar; Utpal Smart; Bruce Budowle (Bioinform., 2020)

ProDerAl: reference position dependent alignment. - Benjamin Crysup; Bruce Budowle; August E. Woerner (Bioinform., 2021)

ProSynAR: a reference aware read merger. - Benjamin Crysup; Bruce Budowle; August E. Woerner (Bioinform., 2022)

USAT: a bioinformatic toolkit to facilitate interpretation and comparative visualization of tandem repeat sequences. - Xuewen Wang; Bruce Budowle; Jianye Ge (BMC Bioinform., 2022)