UmerMaqsood10 ✭
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- UmerMaqsood10
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- Pakistan
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@shlee said: Hi @UmerMaqsood10, Yes, you may run VQSR on a combined VCF. There is no need to split samples into different files. Thank you very much shlee for this solution. I will try to do it using gatktool available in main gala…
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@Geraldine_VdAuwera said: Based on this it looks like VQSR was not applied to this data. Dear Geraldine is there any way I can run Variant quality re-calibration using this combined file? or I need to split it first? The only thing I am g…
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@Geraldine_VdAuwera said: ^^ What @SkyWarrior recommends is correct; if you are lucky the VCF header should contain that information. If not then it's more difficult. Sometimes the presence or absence of some annotations can be a clue; for exampl…