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Compute IBD sharing / pi-hat #180

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alexb-3 opened this issue Feb 2, 2016 · 0 comments · Fixed by #738
Closed

Compute IBD sharing / pi-hat #180

alexb-3 opened this issue Feb 2, 2016 · 0 comments · Fixed by #738
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@alexb-3
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alexb-3 commented Feb 2, 2016

See PLINK (https://www.cog-genomics.org/plink2/ibd). Most basic application is to identify and filter duplicate or related individuals.
@danking danking self-assigned this Aug 24, 2016
danking pushed a commit to danking/hail that referenced this issue Sep 7, 2016
implement IBD estimation, resolves hail-is#180
0f75dd0 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit to danking/hail that referenced this issue Sep 7, 2016
implement IBD estimation, resolves hail-is#180
79ea55f 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit to danking/hail that referenced this issue Sep 22, 2016
implement IBD estimation, resolves hail-is#180
3f7b863 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit to danking/hail that referenced this issue Sep 28, 2016
implement IBD estimation, resolves hail-is#180
e84dadf 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit to danking/hail that referenced this issue Sep 28, 2016
implement IBD estimation, resolves hail-is#180
50f8750 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit to danking/hail that referenced this issue Sep 28, 2016
implement IBD estimation, resolves hail-is#180
63ecb9d 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit to danking/hail that referenced this issue Sep 28, 2016
implement IBD estimation, resolves hail-is#180
97991b5 
An implementation of the algorithm for IBD described in the plink
paper.
@danking danking mentioned this issue Sep 29, 2016
Merged
danking pushed a commit that referenced this issue Sep 29, 2016
@danking
implement IBD estimation, resolves #180
e5ef386 
An implementation of the algorithm for IBD described in the plink
paper.
danking pushed a commit that referenced this issue Aug 18, 2022
@lgruen @vladsavelyev
[batch] Use sops for credentials (#11724)
fd0afbc 
* Infra: remove `globals.tfvars` and describe `ci-config` (#180)

* ci tf: parametrize bucket

* ci tf: parametrize bucket fix

* Infra: remove global.tfvars, add ci/bucket_name var, add ci-config to README

* Gitignore .tfvars

* Revert parametrising ci bucket name (hail-ci is okay). Add query_gsa_secret

* Fix

* Update infra/gcp/README.md

Co-authored-by: Leonhard Gruenschloss <leonhard.gruenschloss@populationgenomics.org.au>

* Update infra/gcp/README.md

Co-authored-by: Leonhard Gruenschloss <leonhard.gruenschloss@populationgenomics.org.au>

* Update infra/gcp/README.md

Co-authored-by: Leonhard Gruenschloss <leonhard.gruenschloss@populationgenomics.org.au>

* Remove query_gsa_secret

Co-authored-by: Leonhard Gruenschloss <leonhard.gruenschloss@populationgenomics.org.au>

* Use sops for credentials (#182)

* Use sops for credentials

* Fix markdown

* Fix indentation

* Remove CPG credentials

* Remove newline

* Fix global.tfvars path

* Also commit global.tfvars

* Put deployment-specific files into $ORGANIZATION_DOMAIN subdirectory

* ORGANIZATION_DOMAIN --> GITHUB_ORGANIZATION

* Add github_organization to global.tfvars template

* Use github_organization in main.tf for credentials paths

Co-authored-by: Vlad Savelyev <vladislav.savelyev@populationgenomics.org.au>
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@danking @alexb-3