The Ribosomal Database Project (RDP) provides researchers with quality-controlled bacterial and archaeal small subunit rRNA alignments and analysis tools. An improved alignment strategy uses the Infernal secondary structure aware aligner to provide a more consistent higher quality alignment and faster processing of user sequences. Substantial new analysis features include a new Pyrosequencing Pipeline that provides tools to support analysis of ultra high-throughput rRNA sequencing data. This pipeline offers a collection of tools that automate the data processing and simplify the computationally intensive analysis of large sequencing libraries. In addition, a new Taxomatic visualization tool allows rapid visualization of taxonomic inconsistencies and suggests corrections, and a new class Assignment Generator provides instructors with a lesson plan and individualized teaching materials. Details about RDP data and analytical functions can be found at http://rdp.cme.msu.edu/.
['James R. Cole', 'Qiong Wang', 'Erick Cardenas', 'Jordan A. Fish', 'Benli Chai', 'Ryan J. Farris', 'A. S. Kulam-Syed-Mohideen', 'Donna M. McGarrell', 'Terry L. Marsh', 'George M. Garrity', 'James M. Tiedje']
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis