Reviewer name and names of any other individual's who aided in reviewer	Joshua T. Burdick
Do you understand and agree to our policy of having open and named reviews, and having your review included with the published papers. (If no, please inform the editor that you cannot review this manuscript.)	Yes
Is the language of sufficient quality?	Yes
Please add additional comments on language quality to clarify if needed	In line 284, "bioinformatic" may be more often used than "BioInformatic", but the meaning is clear.
Are all data available and do they match the descriptions in the paper?	Yes
Additional Comments
Are the data and metadata consistent with relevant minimum information or reporting standards? See GigaDB checklists for examples <a href="http://gigadb.org/site/guide" target="_blank">http://gigadb.org/site/guide</a>	Yes
Additional Comments	Presumably the files (e.g. eventalign data) which are not in SRA will need to be uploaded to the GigaByte site.
Is the data acquisition clear, complete and methodologically sound?	Yes
Additional Comments
Is there sufficient detail in the methods and data-processing steps to allow reproduction?	Yes
Additional Comments	Line 177 should presumably be "nanopolish evenetalign".
Is there sufficient data validation and statistical analyses of data quality?	Yes
Additional Comments	In my opinion, Figure 3(A) nicely illustrates the uncertainty in current nanopore data, which is useful.
Is the validation suitable for this type of data?	Yes
Additional Comments
Is there sufficient information for others to reuse this dataset or integrate it with other data?	Yes
Additional Comments
Any Additional Overall Comments to the Author	The RNA samples, and nanopore sequencing data, should be useful as a negative control. Sequencing these IVT RNA samples using the newer ONT RNA004 pore and kit might also be useful.
Recommendation	Accept