pbcmcData: Example PAM50 objects for pbcmc package

In pbcmc: Permutation-Based Confidence for Molecular Classification

Description

The dataset corresponds to the Permutation-Based Confidence for Molecular Classification package PAM50 example objects, that was filtrated, classifyed and permutated 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 [e-mail], German A. Gonzalez [e-mail], Andrea S. Llera [e-mail] and Elmer Andres Fernandez [e-mail]

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

pbcmc documentation built on Nov. 1, 2018, 2:09 a.m.