Fig. 4

Variant calling comparison between Agilent SureSelect and Roche NimbleGen kit. Mean percentage ± SD of SNVs and InDels common to both library prep kits (blue), and private to either Roche (red) or Agilent (green) kit in both FF and FFPE samples. The average percentage of common SNVs (a) and InDels (b) was approximately 48 % (FF: 47.8 %; FFPE: 48.5 %) and 24 % (FF: 24 %; FFPE: 23.5 %) across the whole target region specific for each kit. The average percentage of common SNVs (c) and InDels (d) was approximately 92 % (FF: 91.9 %; FFPE: 93 %) and 69 % (FF: 69.7 %; FFPE: 69.1 %) across the 42 Mb target region shared between the two kits