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

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

1

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

• 33 views

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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