Table 1.

Comparison between mInDel with other InDel calling tools

Method	mInDel	SAMtools	GATK	Atlas2
De novo assembly	Yes	No	No	No
Reference genome-independent	Yes	No	No	No
Different aligners for different read lengths	Yes	No	No	No
InDel sized called	Short, Long	Short	Short	Short
High-throughput genotyping compatibility	Yes	Yes	Yes	Yes
PCR/electrophoresis genotyping amiability	High	Low	Low	Low