Assessing the clinical severity of the Omicron variant in the Western Cape Province, South Africa, using the diagnostic PCR proxy marker of RdRp target delay to distinguish between Omicron and Delta infections – a survival analysis
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SciScore for 10.1101/2022.01.13.22269211: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics IRB: The study was approved by the University of Cape Town Research Ethics Committee (HREC 460/2020). Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis 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:Additional limitations to this study are the low numbers of SARS-CoV-2 infections during the Delta to Omicron transition period, and that we used a proxy marker for …
SciScore for 10.1101/2022.01.13.22269211: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics IRB: The study was approved by the University of Cape Town Research Ethics Committee (HREC 460/2020). Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis 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:Additional limitations to this study are the low numbers of SARS-CoV-2 infections during the Delta to Omicron transition period, and that we used a proxy marker for Omicron and not whole genome sequencing, as only limited sequencing is feasible in our setting. A proxy marker on routine diagnostic testing is likely to result in some variant misclassification, which is evidenced by the high rate of reinfections seen in RTD cases. Attempts to narrow the definition of RTD were not able to resolve this. In addition, this analysis like many others, only compares disease severity between Omicron and Delta. Little is known of the severity of Omicron when compared to the ancestral strain and other non-Delta VOCs.
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.
- Thank you for including a protocol registration statement.
Results from scite Reference Check: We found no unreliable references.
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