Functional Gene Pipeline and Repository

FunGenePipeline | FunGene | RDPipeline | RDP ]

FunGene Pipeline

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Pipeline Tools:

If you use RDP's FunGene, please cite:
Fish, J. A., B. Chai, Q. Wang, Y. Sun, C. T. Brown, J. M. Tiedje, and J. R. Cole (2013).
FunGene: the Functional Gene Pipeline and Repository. Front. Microbiol. 4: 291.

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

Fungene News

07/08/2015  *** Pyro Job Submission up ***
Hardware Issues causing pyro issues now fixed

05/28/2015  RDP Staff attending ASM Meeting in New Orleans
RDP staff will be attending the ASM General Meeting in New Orleans in the coming week. Two RDP posters will be presented: first on Tuesday morning:...

05/26/2015  RDP Release 11.4 available
Updated 16S rRNA hierarchy model to training set No. 14.

03/27/2015  FrameBot new option Add de novo to references available
Unique abundant query sequences will be added to the starting reference set if qualifications are met.

02/23/2015  WARNING -- RDP unavailable Sat., March 7th
Building network infrastructure upgrades planned 8 A.M. through 6 P.M.

02/16/2015  Introducing Xander assembler
RDP's new gene-target metagenomic assembler, Xander, is released

10/21/2014  Classifier provides gene copy number adjustment
RDP Classifier provides gene copy number adjustment for 16S gene sequences.

09/17/2014  Using RDPTools Output with Phyloseq
A comprehensive tutorial using RDPTools output with Phyloseq package released

09/17/2014  RDP Release 11.3 available
RDP Release 11.3 features updated 16S rRNA hierarchy model No. 10.

07/08/2014  UNITE Fungal ITS Classifier training set released
Available on RDP Classifier site, RDP SourceForge and GitHub repository.