dri.smooth.cghdata {DRI} | R Documentation |
A moving average is calculated by chromosomal location of copy number probes using a specified window size.
dri.smooth.cghdata(DNA.data, Chr, mw = 5)
DNA.data |
matrix of DNA copy number data (rows ordered by genome position |
Chr |
vector of chromosomes on which copy number probes are located (ordered by probes' genome position |
mw |
window size to take moving average over |
This function performs one pre-processing method for smoothing copy number data before performing further DNA/RNA integrative analyses. To help eliminate missing values, and reduce noise, for each sample a moving average is taken over a user-specified window size along each chromosome.
DNA.smoothed |
matrix of DNA copy number data smoothed by a moving average window |
Keyan Salari, Robert Tibshirani, and Jonathan R. Pollack
Salari, K., Tibshirani, R., and Pollack, J.R. (2009) DR-Integrator: a new analytic tool for integrating DNA copy number and gene expression data. http://pollacklab.stanford.edu/
drcorrelate
, drcorrelate.null
, drsam
,
drsam.null
, dri.fdrCutoff
, dri.sig_genes
,
dri.heatmap
, dri.merge.CNbyRNA
, dri.smooth.cghdata
,
runFusedLasso
data(mySampleData) attach(mySampleData) DRI.DNA.processed <- dri.smooth.cghdata(DNA.data, Chr, 5)