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Fig. 2 | Source Code for Biology and Medicine

Fig. 2

From: PureCN: copy number calling and SNV classification using targeted short read sequencing

Fig. 2

Example output of PureCN, applied to whole exome sequencing data of a male breast cancer patient. The first step in PureCN is fitting exon-level copy-number to all purity and ploidy combinations in a 2D grid search. The colors visualize the copy number fitting log-likelihood score from low (blue) to high (red). The numbers indicate local optima and their final rank after fitting both copy number and allelic fractions of germline SNPs and somatic mutations

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