madsim_test: A microarray data sample, one colomn numerical values

In 3inar/pmadsim: Prsospective Microarray Simulation Model

Description

A text file containing an example of real microarray which can be used as seed. This dataset is from a Affymetrix GeneChip array (Human Gene 1.0 ST)

Usage

data(madsim_test)

Format

A data frame with 33297 observations on the following variable.

V1

a numeric vector

Examples

    # load a sample of real microarray data
    data(madsim_test)

    # set parameter settings
    mdata <- madsim_test$V1;
    fparams <- data.frame(m1=7, m2=7, shape2=4, lb=4, ub=14, pde=0.02, sym=0.5);
    dparams <- data.frame(lambda1 = 0.13, lambda2 = 2, muminde = 1, sdde = 0.5);
    sdn <- 0.4; rseed <- 50;

    # generate data using microarray as seed
    mydata <- madsim(mdata, n = 10000, ratio = 0, fparams, dparams, sdn, rseed);

    # calculate MMplot variables using samples 1 and 12
    A <- 0.5*(mydata$xdata[,12] + mydata$xdata[,1]);
    M <- mydata$xdata[,12] - mydata$xdata[,1];

    # draw MAplot representation using samples 1 and 12
    plot(A,M)

3inar/pmadsim documentation built on May 21, 2019, 2:31 a.m.