Extended Data Fig. 9: SV and FG prediction from TPS data, paired with WT alleles (regarded as matched-normal). | Nature Biomedical Engineering

Extended Data Fig. 9: SV and FG prediction from TPS data, paired with WT alleles (regarded as matched-normal).

From: Ultrafast prediction of somatic structural variations by filtering out reads matched to pan-genome k-mer sets

Extended Data Fig. 9

a, The TP calls (labelled as ‘Found’ in orange) and false negatives (labelled as ‘Missed’ in grey) of SV callers for cfDNA reference materials – Complete Reference (CR), Complete Mutation Mix (CMM), and Mutation Mix v2 (MMv2) – with different mutant allele ratios (0.5 to 5.0%; grey to black). CR and CMM include NCOA4-RET, EML4-ALK, and CD74-ROS1 FGs, and MMv2 includes NCOA4-RET and TPR-ALK FGs. The total TP for each tool is indicated in the lower right corner. b, Benchmarking SV callers on the reference materials including ETCHING with PGK.

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