RDP: Release 11

ANNOUNCEMENTS

RDP News

12/08/2014  RDP service interruptions
Scheduled campus network updates during the past weekend had caused sporadical interruptions to RDP services. We apologize for the inconvenience. A...

11/12/2014  Informatics Professional job opening at RDP
Work with our team developing important bioinformatics resources.

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

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

07/02/2014  BIOM format support
RDP provides support for BIOM format files

07/01/2014  New Warcup Fungal ITS training set released.
Available on RDP Classifier site, RDP SourceForge and GitHub repository.

06/06/2014  RDP staff at MSA meeting, East Lansing MI
Poster about Fungal Analysis

05/23/2014  Informatics Professional job opening at RDP
Work with a team developing important bioinformatics resources.

RDP Release 11, Update 3 :: September 17, 2014

3,019,928 16S rRNAs :: 102,901 Fungal 28S rRNAs
Find out what's new in RDP Release 11.3 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
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