Highlights An algorithm for automatic Covid-19 quantification based on 2D & 3D deep convolutional neural networks is presented. A Covid-19-specific holistic, highly compact multi-omics signature integrating imaging/clinical/ biological data and associated comorbidities for automatic patient staging is presented and evaluated. Short and Long-term prognosis for clinical resources optimization offering alternative/complementary means to facilitate triage for Covid-19 Clinically-relevant quantification and staging tool validated by comparison with clinical experts is reported.

Highlights CT sensitivity increased after 5 days of symptoms. CT specificity was higher than previously reported, ranging from 84 to 91 %. Disease extent exceeding 25 % of lung parenchyma was associated with poor outcome.