Penalized least squares regression is applied to fit piecewise constant curves to copy number data to locate genomic regions of constant copy number. Procedures are available for individual segmentation of each sample, joint segmentation of several samples and joint segmentation of the two data tracks from SNP-arrays. Several plotting functions are available for visualization of the data and the segmentation results.
|Author||Gro Nilsen, Knut Liestoel and Ole Christian Lingjaerde.|
|Bioconductor views||CopyNumberVariation Genetics SNP Visualization aCGH|
|Date of publication||None|
|Maintainer||Gro Nilsen <email@example.com>|
imputeMissing: Impute missing copy number values
plotChrom: Plot copy number data and/or segmentation results by...
plotFreq: Plot percentage of samples with an aberration at a genomic...
plotGenome: Plot copy number data and/or segmentation results
plotHeatmap: Plot copy number heatmap
plotSample: Plot copy number data and/or segmentation results by sample
subsetData: Retrieve a data subset
subsetSegments: Retrieve a subset of segments
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.