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Illumina / strelka

Strelka2 germline and somatic small variant caller
GNU General Public License v3.0
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Should i deduplicate bam file using picard before call somatic #208

Open changyunjian opened 2 years ago

changyunjian commented 2 years ago

or using bwa result directly

ZekunYin commented 2 years ago

In my opinion, I think it's necessary to dedupkicate using Picard markduplicate or samtools before calling variants. Some test (using seqc2 dataset) results show that it will generate more false positive results if duplicates not removed.