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Data Processing Steps:
Formats for Common Programs:
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.
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 extremely large datasets, please use our command line tools, available through GitHub.
If you use RDPipeline, please cite our most recent article.
Problems with the pipeline?
10/21/2014 Classifier provides gene copy number adjustment
09/17/2014 Using RDPTools Output with Phyloseq
09/17/2014 RDP Release 11.3 available
07/08/2014 UNITE Fungal ITS Classifier training set released
07/02/2014 BIOM format support
07/01/2014 New Warcup Fungal ITS training set released.
06/06/2014 RDP staff at MSA meeting, East Lansing MI
05/23/2014 Informatics Professional job opening at RDP
05/16/2014 Tree Builder Java applet fix in the works
05/16/2014 RDP staff at ASM, Boston