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About the RDP's Pyrosequencing Pipeline

The Ribosomal Database Project's Pyrosequencing Pipeline aims to simplify the processing of large 16S rRNA sequence libraries obtained through pyrosequencing. This site processes and converts the data to formats suitable for common ecological and statistical packages such as SPADE, EstimateS, and R.

HOVER over tool menu item for a popup description;
CLICK on the tool menu item to begin working with it.

NCBI/EBI Submission Tools:

Data Processing Steps:

Formats for Common Programs:

Analysis Tools:

Miscellaneous Utilities:

Note: If you experience problems with the pyrosequencing pipeline, please contact us and we will help you get your sequences processed.

Pyro News

06/06/2013 Amplicon chimera checking with uchime
The functional gene pipeline now offers a tool to check amplicon sequencing datasets for chimeras powered by 03/02/2013 System Maintenance 2013-03-06
All websites will be taken offline Wednesday 5-7pm eastern time for regular system maintenance

12/11/2012 RDP Hardware Upgrades
To keep up with increasing demands on our sites we've added 5 new hosts to the Pyro, Fungene, and CME website cluster.

Additionally we...

11/26/2012 Scheduled site maintenance
The pyro, fungene, and cme websites will be briefly unavailable this afternoon while we perform some routine hardware maintenance. The downtime wi...

11/11/2012 Announcing the new RDP Wiki!
We are pleased to announce the release of the RDP Wiki, available at http://rdp.cme.msu.edu/wiki

10/25/2012 More RDP Tools on github
Links:
FrameBot prebuilt jar on sourceforge
10/15/2012 Pyro job emails issue resolved
We've resolved the ssl certificate issue preventing job emails from being sent. We're working on resending the job completion emails to anyone who...

10/15/2012 No result emails from pyro jobs
There is an issue with the SSL certificate from the MSU mail server preventing our tools from sending result emails.

We apologize for ...

10/12/2012 Maintenance Complete
Hardware upgrades are now complete.