Is there a document or good summary of the different types / conventions for VCF? For example, VCF, sites-only VCF, gVCF, pVCF, spVCF. EG:
A gVCF (Genomic VCF) contains information for every position in the genome - usually by using records that group bands of sites with the same GQ with NON_REF in the ALT block. (Usually has a .g suffix, eg: <sample>.g.vcf)
A Sites-only VCF is a VCF with only site-level annotations (no genotype data), ie: only the first 8 columns (May have .sites-only suffix, eg: <sample>.sites-only.vcf)
Is there a document or good summary of the different types / conventions for VCF? For example, VCF, sites-only VCF, gVCF, pVCF, spVCF. EG:
.g
suffix, eg:<sample>.g.vcf
).sites-only
suffix, eg:<sample>.sites-only.vcf
)I'm interested to know if there are more, (if there's a good "bible" for this,) and what interesting conventions there are for each.
Thanks in advance!