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Copy file name to clipboardexpand all lines: evaluation/badges.html
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<p><em>Caveat: Please note that these criteria are based on available information about each badge online, and that we have likely differences in our procedure (e.g. allowed troubleshooting for execution and reproduction, not under tight time pressure to complete). Moreover, we focus only on reproduction of the discrete-event simulation, and not on other aspects of the article. We cannot guarantee that the badges below would have been awarded in practice by these journals.</em></p>
<p>Exploring methods for overlaying figures. Not timed as not about reproduction of this study, but about how we are going to do this each time when reproducing.</p>
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<p>Decided that it’s not helpful to do this - spend more time fiddling around with getting them to resize and overlay correctly - and that the simplest option here would be to compare by eye.</p>
<h3class="anchored" data-anchor-id="comparing-best-practice-audit-results-with-monks-and-harper">Comparing best practice audit results with Monks and Harper</h3>
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<p>Compared my decisions for the best practice audit against those made in Monks and Harper.</p>
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<p>Their GitHub is <ahref="https://github.com/TomMonks/des_sharing_lit_review">TomMonks/des_sharing_lit_review</a>, which provides the file <code>bp_audit.zip</code>. I used the provided code to clean this and saved it as <code>bp_audit_clean.csv</code>, which can then view here:</p>
<p>This is a plain english summary for this reproduction report</p>
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<p>Allen, M., Bhanji, A., Willemsen, J., Dudfield, S., Logan, S., & Monks, T. <strong>A simulation modelling toolkit for organising outpatient dialysis services during the COVID-19 pandemic</strong>. <em>PLoS One</em> 15, 8 (2020). <ahref="https://doi.org/10.1371%2Fjournal.pone.0237628" class="uri">https://doi.org/10.1371%2Fjournal.pone.0237628</a>.</p>
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<p>Manuscript title:</p>
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<p>Authors (with email + orcid if known):</p>
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<p>Summary of paper:</p>
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<p>Links (DOI/URL) to everything available for that article (pre-reg, article, supplementary, code):</p>
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<p>Cite the protocol used for reproduction.</p>
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<p>Scope of reproducibility report:</p>
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<ul>
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<li>The overall reproduction success of the paper can be described as the proportion of items from the scope that were determined to be reproduced (e.g. 4 out of 5, 80%). This provides more context than just stating that a paper was or was not reproduced. When describing the reproduction success, it is important to include context on troubleshooting steps required (such as writing new code or contacting the author).</li>
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<p>Results:</p>
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<ul>
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<li>Reproduction success</li>
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<li>Evaluation (against sharing, badges, and reporting guidelines)</li>
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</ul>
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<p><strong>Study:</strong> Allen, M., Bhanji, A., Willemsen, J., Dudfield, S., Logan, S., & Monks, T. A simulation modelling toolkit for organising outpatient dialysis services during the COVID-19 pandemic. <em>PLoS One</em> 15, 8 (2020). <ahref="https://doi.org/10.1371%2Fjournal.pone.0237628" class="uri">https://doi.org/10.1371%2Fjournal.pone.0237628</a>.</p>
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<p><strong>Model:</strong> Discrete-event simulation, dialysis units during COVID-19, keeping COVID positive and negative patients seperate</p>
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<p><strong>Contributors:</strong> Amy Heather (reproduction), Tom Monks (advice).</p>
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<p><strong>Scope:</strong> Three figures</p>
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<p><strong>Reproduction success:</strong> 3 of 3 (100%)</p>
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<p><strong>Evaluation against guidelines:</strong></p>
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"href": "evaluation/reproduction_report.html",
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"title": "Computational reproducibility report",
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"text": "Allen, M., Bhanji, A., Willemsen, J., Dudfield, S., Logan, S., & Monks, T. A simulation modelling toolkit for organising outpatient dialysis services during the COVID-19 pandemic. PLoS One 15, 8 (2020). https://doi.org/10.1371%2Fjournal.pone.0237628.\nManuscript title:\nAuthors (with email + orcid if known):\nSummary of paper:\nLinks (DOI/URL) to everything available for that article (pre-reg, article, supplementary, code):\nCite the protocol used for reproduction.\nScope of reproducibility report:\n\nThe overall reproduction success of the paper can be described as the proportion of items from the scope that were determined to be reproduced (e.g. 4 out of 5, 80%). This provides more context than just stating that a paper was or was not reproduced. When describing the reproduction success, it is important to include context on troubleshooting steps required (such as writing new code or contacting the author).\n\nResults:\n\nReproduction success\nEvaluation (against sharing, badges, and reporting guidelines)"
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"text": "Study: Allen, M., Bhanji, A., Willemsen, J., Dudfield, S., Logan, S., & Monks, T. A simulation modelling toolkit for organising outpatient dialysis services during the COVID-19 pandemic. PLoS One 15, 8 (2020). https://doi.org/10.1371%2Fjournal.pone.0237628.\nModel: Discrete-event simulation, dialysis units during COVID-19, keeping COVID positive and negative patients seperate\nContributors: Amy Heather (reproduction), Tom Monks (advice).\nScope: Three figures\nReproduction success: 3 of 3 (100%)\nEvaluation against guidelines:\n\n\n\n\n\n\n\n\n\n\n\nCategory\nTotal Items\nFully Met\nPartially Met\nNot Met\nNot Applicable\n\n\n\n\nBest Practice Audit\n11\n9\n1\n1\n-\n\n\nSTARS (Essential)\n7\n5\n1\n1\n-\n\n\nSTARS (Optional)\n5\n1\n-\n4\n-\n\n\nBadges (Criteria)\n12\n9\n-\n3\n-\n\n\nBadges (Badges)\n12\n10\n-\n2\n-\n\n\nSTRESS-DES\n24\n15\n3\n4\n2\n\n\nISPOR-SDM\n18\n14\n1\n1\n2"
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