Nate Coraor

This paper demonstrates agentic science on public infrastructure to ensure reproducibility by making all agent actions and workflows publicly accessible.

The paper presents a pipeline for predicting genome-wide protein-protein interactions and generating structural models, validated on human and yeast genomes and applied to SARS-CoV2 proteins.

TIaaS provides scalable infrastructure for efficient bioinformatics training, enabling remote and in-person classes with minimal delays and administrative overhead.

The paper describes integrating refgenie into Galaxy to manage and share reference datasets, with tools for retrieval and a global repository for easy access.

The paper highlights the importance of open data and analytics in responding to public health emergencies, using COVID-19 genomic data to demonstrate the effectiveness of community-driven software tools and infrastructure.

The paper introduces GEDA, a framework enabling interoperability between Galaxy user data and external resources by accepting URLs pointing to user data.

The paper describes a hybrid platform integrating predefined workflows with ad hoc analytics to simplify and reproduce the raw data-to-publication process in biomedical research.