Creating a contrast matrix for some datasets with no replicates with bunch of normal datasets with replicates
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5.2 years ago
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I have read about 119 CEL files in my rawdata object using ReadAffy.

In this there are CEL files 1:106 comprising of individual patient data that needs to be compared with normal CEL files 107:119. If I want to contrast each CEL files 1:106 with normal CEL files(107:119), how would I create a design and contrast matrix intuitively.

Any help is much appreciated.

Affy microarray limma • 1.2k views
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