RT Journal Article
SR Electronic
T1 No more business as usual: agile and effective responses to emerging pathogen threats require open data and open analytics
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.02.21.959973
DO 10.1101/2020.02.21.959973
A1 Galaxy and HyPhy developments teams
A1 Anton Nekrutenko
A1 Sergei L Kosakovsky Pond
YR 2020
UL http://biorxiv.org/content/early/2020/02/25/2020.02.21.959973.abstract
AB The current state of much of the Wuhan pneumonia virus (COVID-19) research shows a regrettable lack of data sharing and considerable analytical obfuscation. This impedes global research cooperation, which is essential for tackling public health emergencies, and requires unimpeded access to data, analysis tools, and computational infrastructure. Here we show that community efforts in developing open analytical software tools over the past ten years, combined with national investments into scientific computational infrastructure, can overcome these deficiencies and provide an accessible platform for tackling global health emergencies in an open and transparent manner. Specifically, we use all COVID-19 genomic data available in the public domain so far to (1) underscore the importance of access to raw data and to (2) demonstrate that existing community efforts in curation and deployment of biomedical software can reliably support rapid, reproducible research during global health crises. All our analyses are fully documented at https://github.com/galaxyproject/SARS-CoV-2.