masigpro.edesign: The function creates an edesign object needed to run maSigPro

Description Usage Author(s) See Also

Description

The function creates an edesign object needed to run maSigPro. To know more about edesign object see maSigPro help. This function uses a specific configuration of Target column of the affylmGUI target file. To know more about target file see affylmGUI help. Each row of the column named Target, in the affylmGUI target file, describes the array on the basis of the experimental design. Each element needed for the construction of edesign is separated from the others by an underscore. The first three elements of the row are fixed and represent Time Replicate Control all separated by an underscore: Time_Replicate_Control. All the other elements refer to various experimental conditions. Considering two different conditions to be evaluated each row is made of 5 elements: Time_Replicate_Control_cond1_cond2 all separated by an underscore. Having an experiment made of 9 arrays, with two time points, 0h and 24h, in triplicate, and two different experimental conditions to be evaluated, the affylmGUI target file will look like:

Name FileName Target
mC1 M1.CEL 0_1_1_0_0
mC2 M4.CEL 0_1_1_0_0
mC3 M7.CEL 0_1_1_0_0
mE1 M3.CEL 24_2_0_1_0
mE2 M6.CEL 24_2_0_1_0
mE3 M9.CEL 24_2_0_1_0
mI1 M2.CEL 24_3_0_0_1
mI2 M5.CEL 24_3_0_0_1
mI3 M8.CEL 24_3_0_0_1

Usage

1

Author(s)

Raffaele A Calogero

See Also

masigpro, masigpro.view


Bioconductor-mirror/oneChannelGUI documentation built on July 28, 2017, 5:23 a.m.