Additional file 2.

Synthetic regions without noise.Synthetic BAF (left graph) and LRR (right graph) signals of some example regions generated with CnaGen at different contamination levels and without probe-specific and autocorrelated noises: a heterozygous deletion (first column), a normal diploid region (second column), the various heterozygous CNA events up to copy number 5 (third to seventh columns) and two concrete cases of 2 and 3-subclone CNAs (last two columns). Each SNP probe provides a measurement of the proportion of one of the alleles (BAF) and the total intensity coming from the two alleles (LRR).

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Mosén-Ansorena et al. BMC Bioinformatics 2012 13:192   doi:10.1186/1471-2105-13-192