table2eset: Conversion of table to Expression set object.
In Mfuzz: Soft clustering of time series gene expression data

Description Usage Arguments Details Value Author(s)

A expression matrix stored as a table (in a defined format) is read and converted to Expression Set object.

1	table2eset(filename)

filename

name of file to be scanned in

The expression matrix stored as table in the file has to follow some conventions in order to be able to be converted to an Expression Set object: The first row of the file contains sample labels and optionally, the second column can contains the time points. If the second row is used for the input the time, the first field in the second row must contain “Time”. Similarly, the first column contains unique gene IDs and optionally second row can contain gene names. If the second row contains gene names, the second field in the first row must contain “Gene.Name”. The rest of the file contains expression data. As example, two tables with expression data are provided. These examples can be viewed by inputing data(yeast.table) and data(yeast.table2) in the R console.

An Expression Set object is generated.

Matthias E. Futschik (http://www.sysbiolab.eu)

Mfuzz documentation built on Nov. 8, 2020, 5:22 p.m.