Temporal landscape of mutational frequencies in SARS-CoV-2 genomes of Bangladesh: possible implications from the ongoing outbreak in Bangladesh
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SciScore for 10.1101/2020.08.20.259721: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Later, the MSA file was opened with Jalview visualization software to eliminate the redundancy of the studied sequences (Waterhouse et al., 2009). Jalviewsuggested: (Jalview, RRID:SCR_006459)2.3 Phylogenetic Analysis of SARS-CoV-2 sequences: To infer the evolutionary relationships among the examined sequences, the sequences were aligned with relevant reference sequences retrieved from NCBI database using the neighbor-joining approach (Rahman et al., 2020). NCBIsuggested: (NCBI, RRID:SCR_006472)The Molecular Evolutionary Genetics Analysis across Computing Platforms (MEGA 7) (Kumar et al., … SciScore for 10.1101/2020.08.20.259721: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Later, the MSA file was opened with Jalview visualization software to eliminate the redundancy of the studied sequences (Waterhouse et al., 2009). Jalviewsuggested: (Jalview, RRID:SCR_006459)2.3 Phylogenetic Analysis of SARS-CoV-2 sequences: To infer the evolutionary relationships among the examined sequences, the sequences were aligned with relevant reference sequences retrieved from NCBI database using the neighbor-joining approach (Rahman et al., 2020). NCBIsuggested: (NCBI, RRID:SCR_006472)The Molecular Evolutionary Genetics Analysis across Computing Platforms (MEGA 7) (Kumar et al., 2016) software was used to construct phylogenetic tree applying the neighbor-joining method (Saha et al., 2020) and evolutionary distances were computed using the Kimura-Nei method (Saitou, 1987). MEGAsuggested: (Mega BLAST, RRID:SCR_011920)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: 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.
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