Transmission from vaccinated individuals in a large SARS-CoV-2 Delta variant outbreak
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SciScore for 10.1101/2021.10.20.21265137: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics IRB: Sample and data collection: The research project (Protocol #1603078) was reviewed and approved by the MA Department of Public Health Institutional Review Board and covered by a reliance agreement at the Broad Institute.
Consent: Residual samples were collected and sequenced under a waiver of consent by the MADPH IRB.
Field Sample Permit: Some study staff maintain dual affiliations with Mass General Brigham and the Broad Institute, but this research was conducted solely at the Broad Institute, Harvard University, and MADPH.Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Table 2: Resources
Software and Algorithms Sentences Res… SciScore for 10.1101/2021.10.20.21265137: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics IRB: Sample and data collection: The research project (Protocol #1603078) was reviewed and approved by the MA Department of Public Health Institutional Review Board and covered by a reliance agreement at the Broad Institute.
Consent: Residual samples were collected and sequenced under a waiver of consent by the MADPH IRB.
Field Sample Permit: Some study staff maintain dual affiliations with Mass General Brigham and the Broad Institute, but this research was conducted solely at the Broad Institute, Harvard University, and MADPH.Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Table 2: Resources
Software and Algorithms Sentences Resources We deposited genomes (Genbank), metadata (BioSample), and raw reads (SRA) to NCBI under BioProject PRJNA715749. BioProjectsuggested: (NCBI BioProject, RRID:SCR_004801)We used LoFreq version 2.1.5 to call intrahost single nucleotide variants (iSNVs) with default parameters (minimum read depth ≥10, strand bias <85%, and default iSNV quality scoring)17. LoFreqsuggested: (LoFreq, RRID:SCR_013054)Results from OddPub: Thank you for sharing your data.
Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.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.
Results from scite Reference Check: We found no unreliable references.
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