Fig. 2

Benchmarking of transIndel for large indels against existing indel detection tools using 100 bp simulated reads. Recall (upper panels) and precision (lower panels) were evaluated for transIndel, GATK HaplotypeCaller, Pindel, Platypus, Scalpel, Delly, FermiKit and NovoBreak. Smoothed histograms (100 bp bins) showed the comparison on simulated data of 10×, 20× and 50× mean coverage for detecting 1000 deletions and 1000 insertions, one each from the size range of 1 bp to 1 kb. Precision was not calculated if a zero denominator was given by the method