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Additional info fields #174

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timothymillar opened this issue Mar 2, 2024 · 0 comments
Open

Additional info fields #174

timothymillar opened this issue Mar 2, 2024 · 0 comments
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enhancement New feature or request vcf format

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@timothymillar
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timothymillar commented Mar 2, 2024 •
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Some additional (optional) info fields that would speed up filtering etc.

  • MCIP/MCIT: proportion/count of samples found with evidence of Markov chain incongruence
  • SAFP: sum of posterior allele frequencies (less issue with rounding in larger populations)
  • SAOP sum of posterior allele occurrence (interpreted as number of samples in which an allele occurs)
  • CIGAR (length A): alternative to SNVPOS
  • NLOC: number of variable loci (count of values in SNVPOS)
  • UAN: Count of unique in state alleles
@timothymillar timothymillar added enhancement New feature or request vcf format labels Mar 2, 2024
timothymillar added a commit to timothymillar/MCHap that referenced this issue May 10, 2024
@timothymillar
Add more optional --report fields PlantandFoodResearch#174
f3fabf9 
- Allow specification of INFO and FORMAT field variants
- Add ACP field
- Add INFO/AOPSUM field
- Add SNVDP field
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enhancement New feature or request vcf format
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