Browsers | Classifier | LibCompare | SeqMatch | Probe Match | Tree Builder | Pyro | Taxomatic | seqCart | AssignGen
myRDP logo and link
 

Classifier - Start

[ video tutorial | help ]

Introduction

newThe Fungal LSU Classifier (large subunit rRNA gene) hierarchy model and training set were provided by Andrea Porras-Alfaro, Gary Xie, and Cheryl Kuske (supported through a DOE Science Focus Area grant to Los Alamos National Laboratory). Read more details.

Use our classifier to assign 16S rRNA or Fungal LSU sequences to the new phylogenetically consistent higher-order bacterial and fungal taxonomy. Hierarchical taxa assignment is based on RDP naïve Bayesian rRNA Classifier. The newly trained classifier allows classification of both bacterial and archaeal 16S rRNA sequences, and Fungal LSU sequences.

How to cite Classifier? Wang, Q, G. M. Garrity, J. M. Tiedje, and J. R. Cole. 2007. Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy. Appl Environ Microbiol. 73(16):5261-7. The Classifier and MultiClassifier (to classify multiple samples) command line programs, along with the source code, javadoc, example taxonomy and sequence files, and help files, is freely available from sourceforge and is released under the terms of the GNU General Public License.

Help topics: Partial sequences with length shorter than 250 bps should use bootstrap cutoff 50%.


Please enter your sequences:


Did you know you can select sequences from myRDP and Hierarchy Browser to do classification?


Choose a gene:

Choose a file to upload:


Cut and paste sequence(s) (in Fasta, GenBank, or EMBL format):

   

 

Questions/comments: rdpstaff@msu.edu

 Move to Toptop topMove to Top