This repository contains the source code for our 2014 paper
The hdf5/ folder contains the current data files.
Material relevant to the paper is in paper/ folder. The paper is written as a reproducible research document. See the README in that folder.
Gigascience allows for open peer review, so you can see all the peer-review reports and responses. In particular, note the supplementary pdf sent by Christophe Pouzat, which demonstrates an advantage of submitting your code - he was able to show alternative methods for presenting the results.
We now have a docker container for this project:
docker run -d -p 8787:8787 sje30/waverepo
Then visit the web page to start R (username and password are "rstudio"):
http://localhost:8787/ ## linux
http://192.168.59.103:8787/ ## mac, windows users
Inside the waverepo/paper folder you can see the .Rnw file and the
resulting pdf which you can view or regenerate.