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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.

ALERT: 16 Feb 2011 - NCBI Announces Discontinuation of the Sequence Read Archive (SRA) and Trace Archive Repositories (see news item below)

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

12/01/2011 RDP featured in Science Watch, Dec. 2011
Director James Cole answers questions about the RDP Classifier

11/29/2011 Brief Service Interruption
There was a brief power outage from 16:30-17:45 this evening that caused some issues with the RDP sites. The problem has been resolved and all ser...

06/16/2011 RDP User Jobs Slow Turnaround Update
The RDP pyrosequencing site (http://pyro.cme.msu.edu) has been under heavy usage for the past several days (thank you for using our tools!). How...

05/27/2011 RDP Poster at BAGECO11
The RDP FunGene Pipeline: tools for gene-targeted metagenomics

05/18/2011 RDP Staff attending ASM New Orleans, May 22-25
Visit with RDP staff at the poster session on Tues. afternoon

05/04/2011 RDP aids its users in making SRA submissions
Don't have your own submission account? Please call us when you're ready to submit.

05/04/2011 RDP's MIMARKS (former MIENS) GoogleSheets Ready!
Visit our GoogleSheets Help page for further information

04/07/2011 Latest MIMARKS (formerly MIENS) standards released
'The Genomic Standards Consortium: Bringing Standards to Life for Microbial Ecology' is now published online in ISMEJ

04/04/2011 RDP MIMARKS GoogleSheet
RDP developed the MIMARKS GoogleSheet to help you manage the metatdata for your samples.