OligoMinerApp: a web-server application for the design of genome-scale oligonucleotide in situ hybridization probes through the flexible OligoMiner environment. - Marco Passaro; Martina Martinovic; Valeria Bevilacqua; Elliot A. Hershberg; Grazisa Rossetti; Brian J. Beliveau; Raoul Jean Pierre Bonnal; Massimiliano Pagani (Nucleic Acids Res., 2020)

JBrowseR: an R interface to the JBrowse 2 genome browser. - Elliot A. Hershberg; Garrett Stevens; Colin M. Diesh; Peter Xie; Teresa De Jesus Martinez; Robert M. Buels; Lincoln Stein; Ian H. Holmes (Bioinform., 2021)

JBrowse Jupyter: a Python interface to JBrowse 2. - Teresa De Jesus Martinez; Elliot A. Hershberg; Emma Guo; Garrett Stevens; Colin M. Diesh; Peter Xie; Caroline Bridge; Scott Cain; Robin Haw; Robert M. Buels; Lincoln D. Stein; Ian H. Holmes (Bioinform., 2023)