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Fig. 2 | BMC Bioinformatics

Fig. 2

From: Accucopy: accurate and fast inference of allele-specific copy number alterations from low-coverage low-purity tumor sequencing data

Fig. 2

Evaluation of Accucopy on a simulated two-subclone (3:2 mixing ratio) tumor sample. The two subclones differ in six subclonal regions, colored in green in panel C. a The TCN FullC results (top part of A) show the Accucopy TCN calls are at least 90% concordant with the ground truth. The TCN CallF results (bottom part of A) indicate Accucopy assigns copy numbers to close to 100% of the genome. b The MACN FullC results indicate the Accucopy MACN calls are at least 85% concordant with the ground truth except when the tumor purity is below 0.1. The MACN results are very similar to those of the single-clone 5X setting. c The top panel is the TCN ground truth, with seven subclonal regions colored in green. The bottom panel are the TCN estimates by Accucopy for a purity = 0.5 sample. d The top panel is the MACN ground truth. The bottom panel are the MACN estimates by Accucopy for the same tumor sample. Accucopy only estimates MACN for clonal regions because of the infinite combinations between the number of subclones and their respective copy number states in the subclonal regions, for which Accucopy is incapable of estimating

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BMC Bioinformatics

ISSN: 1471-2105

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