Hi All.
I have been using #Haplotyplecaller for SNP calling for my organism of study. Recently, I came across #MUTECHT2 tool by GATK which states that it works better for calling spmatic mutations. But my doubt is does it work for Non-tumour samples, If YES then would it be beneficial to switch to MUTECHT2 from Haplotypecaller?
@Geraldine_VdAuwera @Sheila
Best,
Jigar