The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

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ID: 289546
2008
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Abstract
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/.
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Authors James R. Cole, Qi Wang, Erick Cardenas, Jason E. Fish, Benli Chai, Ryan J. Farris, A. S. Kulam-Syed-Mohideen, Donna M. McGarrell, Terence L. Marsh, George M Garrity, James M. Tiedje
Journal Nucleic Acids Research
Year 2008
DOI
10.1093/nar/gkn879
URL
https://academic.oup.com/nar/article-pdf/37/suppl_1/D141/3337084/gkn879.pdf
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