RDP: Release 11

ANNOUNCEMENTS

RDP News

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

05/10/2017  Possible Friday, May 12, morning interruptions
Emergency Generator Testing from 9-10 A.M.

12/13/2016  Most Highly Cited Researchers
Congratulations to RDP Director James Cole

09/30/2016  RDP Release 11.5 available
Updated 16S rRNA training set to training set No. 16.

08/16/2016  Possible Friday morning interruptions
Building electrical testing/maintenance

06/30/2016  RDP Classifier Updates
The Classifier 16S training set and Fungal ITS Warcup set have been updated

06/03/2016  RDP staff on the road!
Teaching in China, Genomic Standards Consortium meeting in Crete, special ASM Microbe events in Boston

10/07/2015  Xander assembler article is published.
Xander: Employing a Novel Method for Efficient Gene-Targeted Metagenomic Assembly

10/07/2015  Warcup Fungal ITS article is accepted!
Fungal identification using a Bayesian Classifier and the 'Warcup' training set of Internal Transcribed Spacer sequences.

RDP Release 11, Update 5 :: September 30, 2016

3,356,809 16S rRNAs :: 125,525 Fungal 28S rRNAs
Find out what's new in RDP Release 11.5 here.

Cite RDP's latest tool articles.


RDP provides quality-controlled, aligned and annotated Bacterial and Archaeal 16S rRNA sequences, and Fungal 28S rRNA sequences, and a suite of analysis tools to the scientific community. New to RDP release 11:

  • RDP tools have been updated to work with the new fungal 28S rRNA sequence collection.
  • A new Fungal 28S Aligner and updated Bacterial and Archaeal 16S Aligner. We optimized the parameters for these secondary-structure based Infernal aligners to provide improved handling for partial sequences.
  • Updated RDPipeline offers extended processing and analysis tools to process high-throughput sequencing data, including single-strand and paired-end reads.
  • Most of the RDP tools are now available as open source packages for users to incorporate in their local workflow.

Hierarchy Browser
Hierarchy
Browser

RDP Classifier

Classifier

Probe Match
Probe
Match

FunGene

FunGene

MIxS GoogleSheets
MIxS
GoogleSheets

Library Compare
Library
Compare

Sequence Match
Sequence
Match

RDPipeline

RDPipeline

RDP Aligner

Aligner

Tree Builder
Tree
Builder

RDP Open Source Tools
RDP
Open Source

Tutorials

Tutorials

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 ProgramNIH Human Microbiome Project

Questions/comments: rdpstaff@msu.edu
Creative Commons License