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Created based on discussions in https://github.com/slsa-framework/slsa/pull/376#discussion_r861836404 and https://github.com/slsa-framework/slsa/pull/376#discussion_r861843826
### Definitions from …
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### Describe the bug
when compiling with `-fcilkplus` it errors with `/usr/bin/ld: cannot find -lcilkrts: No such file or directory`
### Expected behavior
For it to error with a message to us…
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We want to have an agent-based climbing approach for aligning pedigrees and trees.
This should include matching of pedigree nodes to coalescent edges.
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We don't currently have any IO functionality for pedigree formats. These are usually tabular but can be quite variable. We should document how to read in some generic examples and add them to an sgkit…
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Aligner objects as currently implemented only map nodes in the tree sequence to nodes in the pedigree. This can be done either iteratively or in one step. One thing that's missing is "harmonization" o…
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### Is there an existing issue for this?
- [X] I have searched the existing issues
### Feature Description
Features for diabetes prediction include glucose level, insulin level, BMI, age, blood pre…
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As noted by @mcneale on #57 it would be good to be able to "_import pedigree & phenotype files that are so widely used in genetics_."
Certainly as we expand to handle pedigree models, it would be n…
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Hello,
I have been trying to run prepPed with my pedigree
_ped
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Long term goal...
De-couple from CPG as much as possible - the ideal state is "AIP in a box", with a set of defined inputs and documentation on how to generate/format them
- Take PED/Ext IDs/Phe…
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At the moment, much of the detail is described in https://tskit.dev/msprime/docs/stable/pedigrees.html#pedigree-encoding. I think some of this is general to `tskit` rather than `msprime`, and so a sho…