bmiq.mc: A multi-processor wrapper of BMIQ method
In USCbiostats/ENmixUSC: Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip (USC version)
Description
Usage
Arguments
Value
Author(s)
References
See Also
Examples
Description
A multi-processor wrapper of BMIQ method. BMIQ is an intra-sample normalization procedure to correct the bias of Infinium 2 probe methylation beta values.
Usage
1
Arguments
mdat
An object of class MethylSet.
nCores
Number of cores used for computation.
...
See BMIQ in R package wateRmelon for more options.
Value
A data matrix of Methylation beta value.
Author(s)
Zongli Xu
References
Teschendorff AE et. al.
A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. Bioinformatics. 2013
See Also
See BMIQ in R package watermelon for model details
Examples
1
2
3
4
5
6
if(FALSE){
if (require(minfiData)) {
mdat=preprocessENmix(RGsetEx,bgParaEst="oob",nCores=6)
mdatq1=norm.quantile(mdat,method="quantile1")
beta=bmiq.mc(mdatq1,nCores=10)
}}
USCbiostats/ENmixUSC documentation built on June 1, 2019, 3:55 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Arguments Value Author(s) References See Also Examples
Description
A multi-processor wrapper of BMIQ method. BMIQ is an intra-sample normalization procedure to correct the bias of Infinium 2 probe methylation beta values.
Usage
1 |
Arguments
mdat |
An object of class |
nCores |
Number of cores used for computation. |
... |
See BMIQ in R package wateRmelon for more options. |
Value
A data matrix of Methylation beta value.
Author(s)
Zongli Xu
References
Teschendorff AE et. al. A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. Bioinformatics. 2013
See Also
See BMIQ in R package watermelon for model details
Examples
1 2 3 4 5 6 | if(FALSE){
if (require(minfiData)) {
mdat=preprocessENmix(RGsetEx,bgParaEst="oob",nCores=6)
mdatq1=norm.quantile(mdat,method="quantile1")
beta=bmiq.mc(mdatq1,nCores=10)
}}
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.