The distributions of estimated purity varied among cancer types, with the tested lung, esophageal, and breast cancer samples being the least pure on average in our dataset (Fig. 3b). The effect of contamination was readily visible in the copy ratios of impure tumor types (Supplementary Fig. 6). Distributions of estimated ploidy (Fig. 3c) were qualitatively consistent with those derived from previously obtained cytological data for each tumor type 13.
