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Add a sentence to close #13

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barneypotter24 committed Aug 30, 2019
1 parent 5c06b5c commit a595aba644d303c783fdda52fa978102e1f9d7d6
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  1. +1 −0 manuscript/in-progress/texfiles/main.tex
  2. +6 −0 response/response1.tex
@@ -35,6 +35,7 @@
\section*{Methods}
\subsection*{Sequence and antigenic data}
We built phylogenetic trees and frequency estimates for each segment of the influenza virus genome containing data from a two-year window between April 2016--April 2018, as well as a small set of older reference viruses.
This window gives us enough context to see global influenza diversity while maintaining high resolution on the scale of months within individual clades.
A total of 18,844 A(H3N2) sequences were downloaded from GISAID EpiFlu database with submission dates ranging between 2012-04-15 and 2018-04-20 (see Supplemental Text).
From these, sequences were subsampled in order to achieve equal distribution of samples across geographic regions and over a two-year window (see Supplemental Text TSV for full list of samples used in analysis).
In addition to sampling evenly across countries and time, subsampling prioritized virus strains for which antigenic data were available and when possible there were sequence data available for all genomic segments.
@@ -219,6 +219,12 @@ \subsection*{Minor comments}

3. Page 5/20, Line 13: Why did the authors choose to subsample over a 2-year window, instead of per year?\\

\textbf{This is a great point, thank you for bringing it to our attention. We find that a two year time window provides us the best balance between seeing large-scale dynamics between clades over time, as well as more fine-grain dynamics within clades. We have updated the main text to mention this.}

\begin{quotation}
This window gives us enough context to see global influenza diversity while maintaining high resolution on the scale of months within individual clades.
\end{quotation}

4. Page 6/20, Line 31: “Further rapid evolution of took place”. Remove “of”\\

\textbf{Thank you for this catch! The text is now updated appropriately:}

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