Fig. 3

SNV and Indel sensitivity comparisons with other RNA-seq variant calling programs. STAR alignment was used for all except MAPRSeq_RVBoost, which used Tophat alignment. STAR alignment was pre-processed by PanMutsRx or Opossum and then variants were called by either GATK haplotype caller or Platypus. MAPRSeq_RVBoost variants were called by GATK unified genotyper. Default settings were used for variant calling and filtering. Sensitivity was calculated by dividing the number of correct calls in RNA by the total number DNA variants with 10X coverage in RNA-seq