Question: Genotype Extraction Format from VCF file
0
gravatar for MK2000
11 months ago by
MK200030
MK200030 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 • 445 views
ADD COMMENTlink modified 11 months ago by WouterDeCoster42k • written 11 months ago by MK200030

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

ADD REPLYlink written 11 months ago by Pierre Lindenbaum124k
0
gravatar for WouterDeCoster
11 months ago by
Belgium
WouterDeCoster42k 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 11 months ago by WouterDeCoster42k
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