Observations
It is easy to see that the opinion and health articles are the most popular over this time period. It is also clear that the most changes happen during the morning hours of each day. This seems to point to online readers mainting the habit of reading the newspaper at the beginning of the day, even though it is on the computer. Also, only a few articles make it all the way to the top, but there are considerable changes at the bottom of the list.
Data
My data was exclusively from the New York Times page detailing the most emailed articles: http://www.nytimes.com/gst/mostemailed.html
I used the BeautifulSoup python library to parse the rank and article information every 15 minutes. I then used python to transpose the resulting time ordered ranks to a time ordered set for unique articles using the article link as the indentifier. This data is imported to Processing as a tab delmited file to plot the trajectories of each article.
To visualize the data, I selected a series of equally spaced hues to encode each section of the paper. The dots used for each time series are grow slightly over the increasing rank to subtly draw the eye to the top ranked articles. When a section is selected, articles in that section are highlighted to show the trends over the week.