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Implement "seqvars aggregate" #211

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holtgrewe opened this issue Oct 9, 2023 · 0 comments · Fixed by #214
Closed

Implement "seqvars aggregate" #211

holtgrewe opened this issue Oct 9, 2023 · 0 comments · Fixed by #214
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enhancement New feature or request
Milestone
v0.11.0

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@holtgrewe
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Is your feature request related to a problem? Please describe.
We currently have no entrypoint to compute the number of carriers of sequence variants globally.

Describe the solution you'd like
Implement a command "seqvars aggregate" that processes ingested seqvars VCF files and writes out the number of het/hom/hemi carriers. Also write out a list of carriers by case UUID plus a uint8 as index in the pedigree. Write up to 101 entries (configurable).

Describe alternatives you've considered
N/A

Additional context
N/A
@holtgrewe holtgrewe added the enhancement New feature or request label Oct 9, 2023
holtgrewe added a commit that referenced this issue Oct 9, 2023
@holtgrewe
feat: adding "seqvars aggregate" command (#211)
718aff5
@holtgrewe holtgrewe linked a pull request Oct 10, 2023 that will close this issue
feat: adding "seqvars aggregate" command (#211) #214
Merged
holtgrewe added a commit that referenced this issue Oct 10, 2023
@holtgrewe
feat: adding "seqvars aggregate" command (#211) (#214)
d6db0b7
@holtgrewe holtgrewe added this to the v0.11.0 milestone Oct 19, 2023
@varfish-bot varfish-bot mentioned this issue Feb 27, 2024
Merged
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enhancement New feature or request
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v0.11.0
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feat: adding "seqvars aggregate" command (#211) varfish-org/varfish-server-worker
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@holtgrewe