mBPCR: Bayesian Piecewise Constant Regression for DNA copy number estimation

Share:

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

Author
P.M.V. Rancoita <rancoita.paola@gmail.com>, with contributions from M. Hutter <marcus.hutter@anu.edu.au>
Date of publication
None
Maintainer
P.M.V. Rancoita <rancoita.paola@gmail.com>
License
GPL (>= 2)
Version
1.28.0
URLs

View on Bioconductor

Man pages

computeMBPCR
Estimate the copy number profile
estGlobParam
Estimate global parameters of copy number data
estProfileWithMBPCR
Estimate and print the copy number profile of some...
estProfileWithMBPCRforOligoSnpSet
Estimate and print the copy number profile of some...
importCNData
Import the copy number data
jekoChr11Array250Knsp
Affymetrix GeneChip Mapping 250K NSP Array data of JEKO-1...
logAdd
Overflow-safe computation of the logarithm of a sum
mBPCR-internal
Internal mBPCR functions
plotEstProfile
Plot the estimated profile of copy number data
rec10k
Affymetrix GeneChip Mapping 10K Array data of REC-1 cell line
writeEstProfile
Write the estimated profile of copy number data

Files in this package

mBPCR/DESCRIPTION
mBPCR/NAMESPACE
mBPCR/R
mBPCR/R/mBPCR.R
mBPCR/build
mBPCR/build/vignette.rds
mBPCR/data
mBPCR/data/jekoChr11Array250Knsp.txt
mBPCR/data/rec10k.txt
mBPCR/inst
mBPCR/inst/doc
mBPCR/inst/doc/mBPCR.R
mBPCR/inst/doc/mBPCR.Rnw
mBPCR/inst/doc/mBPCR.pdf
mBPCR/inst/extdata
mBPCR/inst/extdata/rec10k.txt
mBPCR/man
mBPCR/man/computeMBPCR.Rd
mBPCR/man/estGlobParam.Rd
mBPCR/man/estProfileWithMBPCR.Rd
mBPCR/man/estProfileWithMBPCRforOligoSnpSet.Rd
mBPCR/man/importCNData.Rd
mBPCR/man/jekoChr11Array250Knsp.Rd
mBPCR/man/logAdd.Rd
mBPCR/man/mBPCR-internal.Rd
mBPCR/man/plotEstProfile.Rd
mBPCR/man/rec10k.Rd
mBPCR/man/writeEstProfile.Rd
mBPCR/vignettes
mBPCR/vignettes/mBPCR.Rnw