The first wave of the COVID-19 epidemic in Spain was associated with early introductions and fast spread of a dominating genetic variant
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SciScore for 10.1101/2020.12.21.20248328: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
No key resources detected.
Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).
Results from LimitationRecognizer: We detected the following sentences addressing limitations in the study:This study has several limitations. Despite being one of the countries with more contribution to public repositories, our dataset only represents a small subset of confirmed cases that occurred in the first COVID-19 wave (1% of …
SciScore for 10.1101/2020.12.21.20248328: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
No key resources detected.
Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).
Results from LimitationRecognizer: We detected the following sentences addressing limitations in the study:This study has several limitations. Despite being one of the countries with more contribution to public repositories, our dataset only represents a small subset of confirmed cases that occurred in the first COVID-19 wave (1% of cases). Moreover, sampling across the country was heterogeneous and the representation of each region in the dataset was not always proportional to the incidence during the studied period. Lack of genome data from countries with high disease burden, especially at the beginning of the pandemic, may have led to underestimating the total number of introductions and prevented a reliable identification of their likely sources based only on viral genome sequences. In addition, we did not have access to individual patient data for most cases. Despite these limitations, we have been able to investigate some of the key cases and events that ignited the epidemic in Spain. This allowed us to understand the origin and early spread of SEC8, which would not have been possible based only on genome data. But we have also shown that genetic data can be used to accurately estimate relevant epidemiological parameters such as Re and doubling times even when the proportion of sampling is low. We believe that our results allow us to draw lessons for the control of this and future pandemics. First, we have shown how specific variants can be used to track the effectiveness of epidemic control measures. In February, the number of SEC8 cases was just a few dozens and yet it end...
Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues relating to the usage of bar graphs.
Results from JetFighter: We did not find any issues relating to colormaps.
Results from rtransparent:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
- No protocol registration statement was detected.
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