MosaicsFitEst-class: Class "MosaicsFitEst"

In dongjunchung/mosaics: MOSAiCS (MOdel-based one and two Sample Analysis and Inference for ChIP-Seq)

Description

This class represents estimates of mosaicsFit function.

Objects from the Class

Objects can be created by calls of the form new("MosaicsFitEst", ...).

Slots

pi0:

Object of class "numeric", representing mixing proportion of background component.

a:

Object of class "numeric", representing parameter for background component.

betaEst:

Object of class "numeric", representing parameter for background component (coefficient estimates).

muEst:

Object of class "numeric", representing parameter for background component.

pNfit:

Object of class "list", representing background model fit.

b:

Object of class "numeric", representing parameter for one-signal-component model.

c:

Object of class "numeric", representing parameter for one-signal-component model.

p1:

Object of class "numeric", representing parameter for two-signal-component model (mixing proportion of signal components).

b1:

Object of class "numeric", representing parameter for two-signal-component model (the first signal component).

c1:

Object of class "numeric", representing parameter for two-signal-component model (the first signal component).

b2:

Object of class "numeric", representing parameter for two-signal-component model (the second signal component).

c2:

Object of class "numeric", representing parameter for two-signal-component model (the second signal component).

inputTrunc:

Object of class "numeric", representing parameter for input-only analysis (threshold for maximum tag count for matched control sample.

analysisType:

Object of class "character", representing type of data analysis.

Author(s)

Dongjun Chung, Pei Fen Kuan, Rene Welch, Sunduz Keles

References

Kuan, PF, D Chung, G Pan, JA Thomson, R Stewart, and S Keles (2011), "A Statistical Framework for the Analysis of ChIP-Seq Data", Journal of the American Statistical Association, Vol. 106, pp. 891-903.

Chung, D, Zhang Q, and Keles S (2014), "MOSAiCS-HMM: A model-based approach for detecting regions of histone modifications from ChIP-seq data", Datta S and Nettleton D (eds.), Statistical Analysis of Next Generation Sequencing Data, Springer.

See Also

mosaicsFit.

Examples

showClass("MosaicsFitEst")

dongjunchung/mosaics documentation built on March 1, 2020, 3:44 a.m.