pam50centroids {pbcmc} | R Documentation

## Example PAM50 objects for pbcmc package

### Description

The dataset corresponds to the Permutation-Based Confidence for Molecular Classification package `PAM50` example objects, that was `filtrate`d, `classify`ed and `permutate`d using the following parameters:

Permutations

  10000

fdr

  0.01

corCutoff

  0.1

keep

  TRUE

### Usage

    data(pam50centroids)

### Format

pam50centroids corresponds with pam50$centroids dataset available in genefu package.

### Value

a PAM50 object with the results obtained for pam50centroids simulations under the given parameters (see Detail section.)

### Author(s)

Cristobal Fresno cfresno@bdmg.com.ar, German A. Gonzalez ggonzalez@bdmg.com.ar, Andrea S. Llera allera@leloir.org.ar and Elmer Andres Fernandez efernandez@bdmg.com.ar

### References

1. Bioscience data mining group http://www.bdmg.com.ar

2. Haibe-Kains B, Schroeder M, Bontempi G, Sotiriou C and Quackenbush J, 2014, genefu: Relevant Functions for Gene Expression Analysis, Especially in Breast Cancer. R package version 1.16.0, www.pmgenomics.ca/bhklab/

3. Perou CM, Sorlie T, Eisen MB, et al., 2000, Molecular portraits of human breast tumors. Nature 406:747-752.

4. Perou CM, Parker JS, Prat A, Ellis MJ, Bernard PB., 2010, Clinical implementation of the intrinsic subtypes of breast cancer, The Lancet Oncology 11(8):718-719.

### See Also

Other PAM50: `as`, `classify,PAM50-method`, `filtrate,PAM50-method`, `permutate,PAM50-method`, `subjectReport,PAM50-method`, `subtypes,PAM50-method`

[Package pbcmc version 1.8.0 Index]