mBPCR specifications

Information


Unique identifier OMICS_02065
Name mBPCR
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.18.0
Stability Stable
Requirements
Biobase, SNPchip, xtable, oligoClasses
Maintained Yes

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Documentation


mBPCR in publications

 (4)
PMCID: 3835832
PMID: 24278162
DOI: 10.1371/journal.pone.0079720

[…] with affymetrix genechip human mapping 250k nspi array, and then preprocessed with cnat 4.01 . after that, the cn profiles have been estimated with the modified bayesian piecewise regression (mbpcr) method . finally, the cn aberrations were divided into two major categories corresponding to a decrease or increase of number of copies, that is, cn and cn . as a consequence, for each probe, […]

PMCID: 3023756
PMID: 21192799
DOI: 10.1186/1756-0500-3-350

[…] analyzed by a thresholding procedure, such as huang et al. []. gada can be applied to both cgh and snp based data. rancoita et al. [] also make use of piecewise constant modeling in their algorithm, mbpcr, which is a modification of the original bayesian piecewise constant regression (bpcr) method developed by hutter []. this method is general for data that take the form of a piecewise constant […]

PMCID: 2912301
PMID: 20550648
DOI: 10.1186/1471-2105-11-321

[…] as a piecewise constant function (i.e. the genome is divided in regions of constant copy number), where the levels assume real values. for the purpose of our model, we estimate this profile by mbpcr, which is a bayesian piecewise constant regression procedure []. it has been shown in [] that this method outperformed well-known other methods on several datasets., commonly, […]

PMCID: 2674052
PMID: 19133123
DOI: 10.1186/1471-2105-10-10

[…] take into account the dependency among the boundaries and succeeded in estimating more than one breakpoint at the same position, losing segments., we derived an improved version of the bpcr (called mbpcr) and brc, changing the segment number estimator and the boundary estimator to enhance the fitting procedure. we also proposed an alternative estimator of the variance of the segment levels, […]


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