Fig. 2
From: The GATK joint genotyping workflow is appropriate for calling variants in RNA-seq experiments
Effect of the minimum read depth (minRD) on the (a) sensitivity, (b) precision, and (c) accuracy of genotype calls of two RNA sequencing (RNA-seq) calling approaches. While the precision is a measure of true positives, accuracy is considered as a false negative measurement. The analysis was performed at different minRD on each sample. Error bars represent two times the individual standard error at each minRD. Asterisks indicate a significant effect at P < 0.05 using a Wilcoxon nonparametric test. The minRD is the minimum number of reads that need to be present in an RNA-seq or genotyping-by-sequencing (GBS) region in order for the region to be considered in the analysis