Dear group, How can I do sigPathway analysis for an agilent experiment. My experimental design: I have 10 chips data. Chips are hybridized by normal and treated from same mouse. sigpathway requires a phenotype label file: indicating 0 (say normal) and 1 (disease). In case of my experiment (two color, matched sampleS) how can I define phenotype file. Any suggestion who have worked out Agilent dual channel data for this kind of design. thank you in advance. srini