Question: Genotype Extraction Format from VCF file
0
gravatar for MK2000
5 weeks ago by
MK200010
MK200010 wrote:

When you extract genotype data for certain samples in a VCF file, is the resultant file in GT.FORMAT still technically a VCF file in itself? or if you wanted these extracted genotypes in their own vcf, do you somehow have to convert this to .vcf?

sequencing terminal vcf • 149 views
ADD COMMENTlink modified 5 weeks ago by WouterDeCoster35k • written 5 weeks ago by MK200010

it's not clear. Give use an example of "resultant file" and"extracted genotypes "

ADD REPLYlink written 5 weeks ago by Pierre Lindenbaum116k
0
gravatar for WouterDeCoster
5 weeks ago by
Belgium
WouterDeCoster35k wrote:

While your question is unclear, if you select lines from your vcf and keep the header intact then yes, that's still a vcf. If you start to do more tampering than you are likely breaking the specfications.

ADD COMMENTlink written 5 weeks ago by WouterDeCoster35k
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