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Fig. 2 | BMC Bioinformatics

Fig. 2

From: Germline contamination and leakage in whole genome somatic single nucleotide variant detection

Fig. 2

Assessment of somatic SNV prediction accuracy against germline leakage. a F1-scores for each submission are plotted against the germline count (as determined by GermlineFilter). Submissions for different tumours are colour-coded (IS1 = orange, IS2 = green, IS3 = purple). The grey area represents 30–80 counts: the minimum number of independent SNPs required to correctly identify a subject, according to Lin et al. [15]. b Proportions of germline calls as found in total submission calls (upper panel) and in false positive submission calls (lower panel) per tumour. The horizontal red lines indicate the 30 count mark (the lower bound of the 30–80 SNP range mentioned above)

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