---
name: "rdp_classifier"
section: "1"
platform: "linux"
package: "rdp-classifier"
version: "2.10.2-6"
release: "Debian 12 (Bookworm)"
platforms: ["linux"]
url: "https://new.carta.tech/rdp_classifier"
---

# rdp\_classifier(1)

taxonomic assignment from next generation sequencing

## NAME

rdp\_classifier - taxonomic assignment from next generation sequencing

## USAGE:

**rdp\_classifier** \[-f \<arg\>\] \[-g \<arg\>\] \[-o \<arg\>\] \[-q \<arg\>\] \[-t \<arg\>\] \[-w \<arg\>\]

## DESCRIPTION

The RDP Classifier is a nave Bayesian classifier that can rapidly and accurately provides taxonomic assignments from domain to genus, with confidence estimates for each assignment.

- **-f**,--format \<arg\>

  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: domain, phylum, class, order, family, genus db: outputs the seqname, trainset\_no, tax\_id, conf. This is good for storing in a database

- **-g**,--gene \<arg\>

  16srrna\|fungallsu, the default training model for 16S rRNA or Fungal LSU genes. This option will be overwritten by **--train\_propfile** option

- **-o**,--outputFile \<arg\>

  output file name for classification assignment

- **-q**,--queryFile \<arg\>

  query file contains sequences in one of the following formats: Fasta, Genbank and EMBL

- **-t**,--train\_propfile \<arg\>

  specify a property file contains the mapping of the training files if it's located outside of data/classifier/. Note: the training files and the property file should be in the same directory. The default property file is set to data/classifier/16srrna/rRNAClassifier.properties.

- **-w**,--minWords \<arg\>

  minimum number of words for each bootstrap trial, Default is 1/8 of the words. Minimum is 5

## AUTHOR

This manual page was generated using help2man and polished by Andreas Tille \<tille@debian.org\>, for the Debian project (but may be used by others).