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Should your variant calling pipeline change depending on whether using WES or WGS?

Hi,

This might be an obvious question, but can you use the same pipeline for WES and WGS? They should all be in FASTQ file, but I just wanted to ask incase I was missing some basic biology between them.

Thanks! Amy

calling wgs wes variant
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written by hello_bioinf • hello_bioinf

1 answer

The main (and as far as I know the only) difference is the usage of different interval lists along your pipelinie for calling and QC metrics collection. but the tools essentially the same

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written by Eugene A Eugene A

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