Hi @wang51, please take a look at this forum announcement! We are currently releasing QIIME 2 once a month, where each release tends to revolve around some central theme. In the August release of QIIME 2 we will be working to fill in any holes regarding any important functionality found in QIIME 1 that is missing in QIIME 2.
It would be useful for us to know what your pipelines (referenced above) look like, to help provide additional information for prioritizing any missing functionality. Thanks!