Packaging, containerization, and virtualization of computational omics methods: Advances, challenges, and opportunities. - Mohammed Alser; Sharon Waymost; Ram Ayyala; Brendan Lawlor; Richard J. Abdill; Neha Rajkumar; Nathan LaPierre; Jaqueline J. Brito; Andre M. Ribeiro-dos-Santos; Can Firtina; Nour Almadhoun; Varuni Sarwal; et al. (CoRR, 2022)

Rigorous benchmarking of T-cell receptor repertoire profiling methods for cancer RNA sequencing. - Kerui Peng; Theodore S. Nowicki; Katie Campbell; Mohammad Vahed; Dandan Peng; Yiting Meng; Anish Nagareddy; Yu-Ning Huang; Aaron Karlsberg; Zachary Miller; Jaqueline J. Brito; Brian B. Nadel; et al. (Briefings Bioinform., 2023)

Analytical code sharing practices in biomedical research. - Nitesh Kumar Sharma; Ram Ayyala; Dhrithi Deshpande; Yesha Patel; Viorel Munteanu; Dumitru Ciorba; Viorel Bostan; Andrada Fiscutean; Mohammad Vahed; Aditya Sarkar; Ruiwei Guo; Andrew Moore; et al. (PeerJ Comput. Sci., 2024)