RDP :: Classifier :: Local Installation

Download RDP Classifier - 

http://sourceforge.net/projects/rdp-classifier/

Unzip the file

$ unzip rdp_classifier_2.1.zip

Move to the newly created directory

$ cd rdp_classifier_2.1

Execute Classifier

$ java -Xmx1g -jar rdp_classifier-2.1.jar -q queryfile -o outputfile.txt -f [allrank|fixrank|db]

- query file can be FASTA, Genbank or EMBL format

- outputfile.txt is the output file

- -f, --format all tab delimited output format: [allrank|fixrank|db]. Default is allrank.

allrank: outputs the results for all ranks applied for each sequence: seqname, orientation, taxon name, rank, conf, ...

fixrank: only outputs the results for fixed ranks in order: no rank, domain, phylum, class, order, family, genus

db: outputs the seqname, trainset_no, tax_id, conf. This is good for storing in a database