add gVCF support #213
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add gVCF support #213
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When --gvcf is supplied, freebayes will output blocks for each region that does not have a call. These have a particular format that is not exactly the same as other records. A genotype quality is provided, but this is just the reference quality sum adjusted by the alternate quality sum. These are provided per-sample. Average depth is provided across the region. Improvement of this format is essential, and this version should stand as a placeholder for future development!
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@nh13 have you found the chunking option to work for you? |
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to be honest, I haven't tried it, but from experience it should be extremely useful for folks putting together 100K sample callsets. |
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When --gvcf is supplied, freebayes will output blocks for each
region that does not have a call. These have a particular format
that is not exactly the same as other records. A genotype quality
is provided, but this is just the reference quality sum adjusted
by the alternate quality sum. These are provided per-sample.
Average depth is provided across the region. Improvement of this
format is essential, and this version should stand as a
placeholder for future development!