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Fig. 5 | BMC Bioinformatics

Fig. 5

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

Fig. 5

The performance of Sclust in predicting TCNs for TCGA samples. CallF and FullC were calculated to assess the performance of Sclust. Each dot represents one sample and is colored according to its sequencing coverage. Each scatterplot is fitted with a redline by loess smoothing. a FullC shows a dependency on both the sequencing coverage and the tumor purity. b CallF is high (~ 0.9) only for samples with sequencing coverage near or above 10. For samples with lower coverage, Sclust may fail to predict copy numbers for significant portions of their genomes. c FullC is highly correlated with CallF. This suggests the more regions that Sclust fails to predict copy numbers, the less concordant its predicted copy numbers are with the TCGA calls. d The colorbar maps the sequencing coverage of each sample to the color of each dot. The sequencing coverage is set to 10 for samples with sequencing coverage above 10. The colorbar scale starts from around 5 because Sclust failed on samples with sequencing coverage below 5

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BMC Bioinformatics

ISSN: 1471-2105

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