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Building on #898 and using the 'matrix multiplication' in WIP #1246 (i.e. genetic_relatedness_weighted), we're trying to implement PCA for tskit. This appears to be working :tada: but is rather slow c…
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With some updates coming down the pipeline in tskit (https://github.com/tskit-dev/tskit/projects/9) we should soon be able to resolve the long-standing issue of interoperating with existing phylogenet…
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As discussed over at https://github.com/tskit-dev/msprime/pull/1316 we can imagine downstream tools will wish to add to existing metadata. `tskit` should provide a method to do this where it raises a …
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raised in #48
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I just had an interesting idea: If we don't know who is the closest relative of an individual over the whole ARG, we could collect the spans over which each sample node is another sample's "nearest ne…
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There's a good demographic model in [Crawford et al](https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-017-0351-0):
![Screenshot from 2021-04-09 09-48-23](https://user-images.githubuserconten…
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Tthe pedigree simulation code seems not to produce "unary" nodes for the intermediate nodes in the tree sequence, so even if a lineage goes through a known node, this information is lost. For instance…
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Hi all,
We are trying to add recipe maintainers / project contacts to the Pyodide recipes. I listed some contributors and the packages that we would like to list them as maintainers / contacts for…
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I have been exploring the functionalities provided by `msprime` for modeling spatially structured populations and have noticed that there isn't a sweep model available for such populations.
I am in…
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Hello,
I'm trying to install the conda environment which is in the yml file on the gith but it doesn't seem to work "Solving environment" doesn't resolve.
I guess some package versions don't s…