Hi All, I recently used the latest version of GATK to carry out Indel realignment for my bam files. I have read at few places that one needs to fix the mate position information as the reads mapping position may change during realignment. My question is that does this step is taken care of by latest GATK automatically or one needs to run Picard fixmates before going for subsequent analysis.
Question: Picard Fixmate Necessaary
6.7 years ago by
Ashutosh Pandey ♦ 11k
Ashutosh Pandey ♦ 11k wrote:
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