MatZ
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bwa index doesn't create .alt file in hg38
AnsweredWe are using Gatk 4.1.4.1 to call somatic variant in the only tumor mode in hg38. We performed sequencing through an amplicon-based targeted gene panel. Due to the presence of another copy of a gen...
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How to keep MAPQ on multiple mapping reads
We are using Gatk 4.1.4.1 to call somatic variant in the only tumor mode in hg38. We performed sequencing through an amplicon-based targeted gene panel. We are not able to call variants validated...