TrainingSet_16S {DECIPHER} | R Documentation

## Training Set for Classification of 16S rRNA Gene Sequences

### Description

A pre-trained classifier for 16S rRNA gene sequences generated by `LearnTaxa`.

### Usage

    data("TrainingSet_16S")

### Format

A training set of class 'Taxa' * K-mer size: 8 * Number of rank levels: 10 * Total number of sequences: 2472 * Number of taxonomic groups: 2472 * Number of problem groups: 5 * Number of problem sequences: 8

### Details

The original training sequences were pruned to a maximum of one sequence per group, as described in the 'Classifying Sequences' vignette.

### Note

This 16S rRNA training set is provided for illustrative purposes only. It is highly recommended to use a more comprehensive training set when classifying real sequences. Examples of comprehensive training sets can be found at http://DECIPHER.codes/Download.html.

### Source

Derived from version 16 of the RDP Training Set (http://rdp.cme.msu.edu) based on Bergey's Manual.

### References

Whitman, W.B., Goodfellow, M., Kampfer, P., Busse, H.-J., Trujillo, M.E., Ludwig, W. & Suzuki, K.-i. (eds., 2012). Bergey's Manual of Systematic Bacteriology, 2nd ed., Springer-Verlag, New York, NY.

### Examples

    data(TrainingSet_16S)
    TrainingSet_16S
    plot(TrainingSet_16S)

[Package DECIPHER version 2.8.1 Index]