New Paper "No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics"
The scientific efforts to fight the current COVID-pandemic have yielded plenty of data. Unfortunately, this data is not always fully shared. In this publication, we show how to overcome these limitations by providing an open platform for transparent research.
Other studies and activities related to SARS-CoV-2 can be found in this running document.
Abstract - The current state of much of the Wuhan pneumonia virus (severe acute respiratory syndrome coronavirus 2 [SARS-CoV-2]) 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 10 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 SARS-CoV-2 genomic data available in the public domain so far to (1) underscore the importance of access to raw data and (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.