Submission formatting checklist for PLOS Computational Biology

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Pre-Submission Formatting Tasks

Before submitting to PLOS Computational Biology, the following formatting changes need to be made:

1. Enable Double Spacing

• Change _quarto.yml line 19: linestretch: 1 → linestretch: 2
• Currently set to single spacing for readability during development
• PLOS requires double spacing for reviewer convenience

2. Enable Line Numbers

• Change _quarto.yml line 20: linenumbers: false → linenumbers: true
• Line numbers help reviewers reference specific locations in the manuscript

3. Remove Funding Information from Manuscript

• Remove the "Funding Information" section from index.qmd (currently around lines 657-662)
• PLOS requires funding information ONLY in the submission system's financial disclosure section
• DO NOT include funding in the manuscript file

4. Add Funding to Submission System

• Copy funding information from the manuscript's current Funding Information section
• Paste into the Financial Disclosure section of the PLOS submission system
• Add required statement: "The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript."

Reference

PLOS Submission Guidelines: https://journals.plos.org/ploscompbiol/s/submission-guidelines

Related Issues

Related to #112 (PLOS format structure discussion)

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Done