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Data Processing Steps:

Formats for Common Programs:

Analysis Tools:

Miscellaneous Utilities:

NCBI/EBI Submission Tools:

RDP's mission and funding:

Part of RDP's mission is to provide support to our users. Email and phone contacts are available on the contacts page.

DOE
NIEHS Superfund Research Program

About the RDP Pipeline

RDP's Pipeline aims to simplify the processing of large rRNA sequence libraries (including single-strand and paired-end reads) obtained through high-throughput sequencing technology. This site offers tools for assembly, quality filtering, taxonomy based analysis and taxonomy independent analysis tools, and tools to convert the data to formats suitable for common ecological and statistical packages.

For large datasets, please use our command line tools, available through RDPTools GitHub.

If you use RDPipeline, please cite our most recent article.

Visit our HELP page (with a topical list) or try our new Procedural Tutorials (with example files).

Problems with the pipeline?
Please contact us and we will help you get your sequences processed.

ANNOUNCEMENTS

Pyro News

12/12/2018  RDP and Fungene Pipelines are back online now!
The issues causing long delays in RDP and Fungene Pipelines in the past week have been resolved. Users need to re-submit the jobs for which resul...

12/06/2018  RDP and Fungene Pipeline problems
RDP Pipeline and Fungene Pipeline are currently not working properly due to technical issues. While RDP team is working hard on restoring the servi...

11/14/2018  myRDP and RDP Pipeline back to normal
The issue that caused submitted jobs being delayed in myRDP and RDP Pipeline has been resolved. All service functions are working normally.

06/05/2018  RDP phone system restored
RDP phone service is now back online.

06/04/2018  RDP phone system down
RDP phone system is temporarily out of service!

03/05/2018  RDP web tool problems fixed!

03/05/2018  RDP web tool problems
We apologize for ongoing problems with several RDP web tools. Our team is now working hard to get them fixed!

11/10/2017  myRDP login problem fixed!

05/16/2017  Apology for slow/NO connection to RDP tools today
Thanks to Alex/Brian, etc. for working things out in the server room

05/10/2017  RDP Director at GSC 19, May 14-17
Genomic Standards Consortium Meeting, Brisbane, Queensland, Australia

Questions/comments: rdpstaff@msu.edu

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