I am looking at the Level 3 CNV files on TCGA - the ones generated using SNP microarrays. I have a few questions:
1. How is 'segment mean' calculated and what is the exact biological interpretation?
2. For each patient I have two files called e.g. ....hg19.seg.txt and nocnv_hg19.seg.txt. What does each file contain, and which should I be using?
Thanks for any help,