timedelay.lm: time delay linear model

Description Usage Arguments References

View source: R/timedelay.lm.R

Description

timedelay.lm is for time delay linear model.

Usage

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timedelay.lm(bspline.data, expr.data, target, regulator,   
maxdelay=ncol(bspline.data)*0.25, single.adj.r.squared=0.8,
multiple.adj.r.squared=0.9, min.coef=0.25, max.coef=4,
output=FALSE, topdf=FALSE, xlab='time point', ylab='log ratio')

Arguments

bspline.data

an interpolated expression matrix with genes in the rows, predicted time points in the columns

expr.data

an observed expression matrix with genes in the rows, predicted time points in the columns

target

target gene

regulator

potential regulators

maxdelay

max time points delay

single.adj.r.squared

the cutoff of adjusted R squared of univariate regression

multiple.adj.r.squared

the cutoff of adjusted R squared of multivariate regression

min.coef

the regression coefficient should be larger than min.coef

max.coef

the regression coefficient should be smaller than max.coef

output

whether the model should be plotted

topdf

whether the model should be plotted into a pdf file

xlab

xlab of the plot

ylab

ylab of the plot

References

Tao Huang, Lei Liu, Ziliang Qian, Kang Tu, Yixue Li, Lu Xie: Using GeneReg to construct time delay gene regulatory networks. BMC Res Notes 2010, 3(1):142. http://www.biomedcentral.com/1756-0500/3/142


GeneReg documentation built on May 30, 2017, 6:07 a.m.