targets.micro: Example of target file

In AgiMicroRna: Processing and Differential Expression Analysis of Agilent microRNA chips

Description

Example of target file

Usage

data(targets.micro)

Format

A data frame with 4 observations on the following 5 variables.

FileName

names of the Files Ast.txt Bst.txt Aunst.txt Bunst.txt

Treatment

Assigns level for Treatment Effect to each File (mandatory)

GErep

a numeric vector tha numerates the FACTOR of the Treatment Effect (mandatory)

Subject

Assigns level for Subject Effect to each File

Details

It is a tab-delimited text format file. The target file is created by the user with the intention of carrying out a differential expression analysis in future steps using 'limma'. Here is where the factors that are going to be included in the linear model that is fitted to each gen are specified. The targets file assigns each data file to a particular experimental conditions. First column 'FileName' is mandatory and includes the image data files names. Second column 'Treatment' is also mandatory and includes the treament effect. Third column 'GErep' is also mandatory, and includes the treatment effect in a numeric code, from 1 to n, being n the number of Treatment effect levels.

Author(s)

Pedro Lopez-Romero

References

Gordon K. Smyth, M. Ritchie, N. Thorne, J. Wettenhall (2007). limma: Linear Models for Microarray Data User's Guide.

See Also

readTargets

AgiMicroRna documentation built on Nov. 8, 2020, 5:25 p.m.