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Table 4 Summary of variant callers used for available benchmarks and their support for replicates

From: JACUSA: site-specific identification of RNA editing events from replicate sequencing data

Variant caller Support for gDNA vs. cDNA cDNA vs. cDNA
  replicates   
SAMtools/BCFtools x x x
REDItools   xa  
MuTect   x  
JACUSA x x x
  1. aThe REDItools package supplies multiple methods to identify RNAediting sites. We employed the REDItoolDenovo.py script because it provides a test-statistic. This method only utilizes RNA-Seq reads