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mBPCR (version 1.26.0)

Bayesian Piecewise Constant Regression for DNA copy number estimation

Description

Estimates the DNA copy number profile using mBPCR to detect regions with copy number changes

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Version

Version

1.26.0

License

GPL (>= 2)

Maintainer

PMV Rancoita

Last Published

February 15th, 2017

Functions in mBPCR (1.26.0)

estProfileWithMBPCRforOligoSnpSet

Estimate and print the copy number profile of some chromosomes of samples in an oligoSnpSet object
estProfileWithMBPCR

Estimate and print the copy number profile of some chromosomes of a sample
rec10k

Affymetrix GeneChip Mapping 10K Array data of REC-1 cell line
mBPCR-internal

Internal mBPCR functions
importCNData

Import the copy number data
jekoChr11Array250Knsp

Affymetrix GeneChip Mapping 250K NSP Array data of JEKO-1 cell line (chr. 11)
writeEstProfile

Write the estimated profile of copy number data
plotEstProfile

Plot the estimated profile of copy number data
estGlobParam

Estimate global parameters of copy number data
logAdd

Overflow-safe computation of the logarithm of a sum
computeMBPCR

Estimate the copy number profile