Another excellent entry in PLOS Computational Biology’s “Ten Simple Rules” series.
Read “Ten simple rules for writing a response to reviewers” here.
Rule 1: Provide an overview, then quote the full set of reviews
Rule 2: Be polite and respectful of all reviewers
Rule 3: Accept the blame
Rule 4: Make the response self-contained
Rule 5: Respond to every point raised by the reviewer
Rule 6: Use typography to help the reviewer navigate your response
Rule 7: Whenever possible, begin your response to each comment with a direct answer to the point being raised
Rule 8: When possible, do what the reviewer asks
Rule 9: Be clear about what changed relative to the previous version
Rule 10: If necessary, write the response twice