Inferring Developmental Stage Composition from Gene Expression in Human Malaria. - Regina Joice; Vagheesh Narasimhan; Jacqui Montgomery; Amar Bir Sidhu; Keunyoung Oh; Evan Meyer; Willythssa Pierre-Louis; Karl Seydel; Danny Milner; Kim Williamson; Roger Wiegand; Daouda Ndiaye; et al. (PLoS Comput. Biol., 2013)

BCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data. - Vagheesh Narasimhan; Petr Danecek; Aylwyn Scally; Yali Xue; Chris Tyler-Smith; Richard Durbin (Bioinform., 2016)

miqoGraph: fitting admixture graphs using mixed-integer quadratic optimization. - Julia Yan; Nick Patterson; Vagheesh Narasimhan (Bioinform., 2021)

Deep learning based phenotyping of medical images improves power for gene discovery of complex disease. - Brianna I. Flynn; Emily Javan; Eugenia Lin; Zoe Trutner; Karl Koenig; Kenoma O. Anighoro; Eucharist Kun; Alaukik Gupta; Tarjinder Singh; Prakash Jayakumar; Vagheesh Narasimhan (npj Digit. Medicine, 2023)

HARE: A Python workflow for analyzing genomic feature enrichment in GWAS datasets. - Olivia S. Smith; Eucharist Kun; Vagheesh Narasimhan (J. Open Source Softw., 2024)