This repository houses the QIIME 2 project, which is currently in early alpha stage. QIIME 2 will be changing rapidly over the next few months, so we don't recommend depending on this for important analysis. In the meantime, you should continue to use QIIME 1 and Qiita.
For updates on QIIME 2, you should follow @qiime_ on twitter.
To learn about where we're going with QIIME 2, see @gregcaporaso's blog post, Toward QIIME 2, and video, q2d2: A public QIIME 2 prototype.