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  • Posted a comment on discussion Help on VarScan

    I am using VarScan v2.4.6, I am failed to output vcf format file when call variant by pileup2snp, my code is: samtools mpileup -f $reference $input.bam | varscan pileup2snp --output-vcf 1 > $output.vcf The result is just the same as without --output-vcf 1, it's do not in vcf format. Could someone help to figure out it, thanks.

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dong0101
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2024-06-28 17:05:56.559000

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