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is there any software designed for the VCF file similarity search?

Is there any software designed for the VCF file similarity search? Or the software for WGS similarity search using .bam/.sam and fastq files?

vcf wgs
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updated by harold.smith.tarheel harold.smith.tarheel • written by hrenchert747 • hrenchert747

1 answer

BEDtools can be used to compare VCFs and identify the common and unique variants between files.

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written by harold.smith.tarheel harold.smith.tarheel

Thx, what functions to use and could you show a case example of data processing?

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written by hrenchert747 • hrenchert747

The 'intersect' command gives the common variants, and 'subtract' the unique ones. Examples of command usage are shown at the BEDtools link I provided.

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written by harold.smith.tarheel harold.smith.tarheel

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