ISOdesign: Experimental design for ISOdata dataset example

In mjnueda/maSigPro: Significant Gene Expression Profile Differences in Time Course Gene Expression Data

Description

ISOdesign is the experimental design to apply ISOmaSigPro to ISOdata dataset example.

Usage

data(ISOdesign)

Format

A matrix with 36 rows and 4 colums

rownames(ISOdesign) "Gr1_0h_1" "Gr1_0h_2" "Gr1_0h_3" "Gr1_2h_1" "Gr1_2h_2" "Gr1_2h_3" "Gr1_6h_1" "Gr1_6h_2" "Gr1_6h_3" "Gr1_12h_1" "Gr1_12h_2" "Gr1_12h_3" "Gr1_18h_1" "Gr1_18h_2" "Gr1_18h_3" "Gr1_24h_1" "Gr1_24h_2" "Gr1_24h_3" "Gr2_0h_1" "Gr2_0h_2" "Gr2_0h_3" "Gr2_2h_1" "Gr2_2h_2" "Gr2_2h_3" "Gr2_6h_1" "Gr2_6h_2" "Gr2_6h_3" "Gr2_12h_1" "Gr2_12h_2" "Gr2_12h_3" "Gr2_18h_1" "Gr2_18h_2" "Gr2_18h_3" "Gr2_24h_1" "Gr2_24h_2" "Gr2_24h_3"

colnames(ISOdesign) "time" "replicate" "Group1" "Group2"

Details

Samples are given in rows and experiment descriptors are given in columns. Row names contain sample names.

"time" indicates the values that variable Time takes in each experimental condition. There are 6 time points.

"replicate" is an index indicating the same experimental condition.

"Group1" and "Group2" columns indicate assigment to experimental groups, coding with 1 and 0 whether each sample belongs to that group or not.

Examples

data(ISOdata)
data(ISOdesign)

mdis <- make.design.matrix(ISOdesign)
MyIso <- IsoModel(data=ISOdata[,-1], gen=ISOdata[,1], design=mdis, counts=TRUE)

mjnueda/maSigPro documentation built on Dec. 11, 2020, 12:21 a.m.