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Originally issue via slendr: https://github.com/bodkan/slendr/issues/83
To paraphrase, the user is trying to install a conda environment on an Arm64 Mac, with the following pins: pyhton=3.8 msprime…
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It would be useful for simulation and other applications to be able to efficiently convert [tskit](https://tskit.dev) tree sequences to VCF Zarr. While this can currently be done with ``tskit vcf`` an…
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When exporting as JSON, the title is now saved as `None`, whereas json requires `null`, so the following won't work. Also it doesn't remember the edge_type and variable_edge_width options, but I guess…
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It appears as if phlash is pinned to numpy < 2. We've just moved the tskit ecosystem so that it is both numpy 1 and numpy 2 compatible. Are you thinking of updating Phlash for this, and do you need an…
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We will have a similar issue that `pyslim` had to deal with because of the time in the metadata from SLiM tree sequences.
https://github.com/popsim-consortium/stdpopsim/blob/5f319a5bbe4f0ffa3be8ce2…
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Hello, can you help me with a question?
How can I graph the ARGs, I do not understand very well the outputs.
Thanks
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E.g.
```python
ts = msprime.sim_ancestry([msprime.SampleSet(1, time=0, ploidy=1), msprime.SampleSet(1, time=1, ploidy=1)])
d3arg = tskit_arg_visualizer.D3ARG.from_ts(ts=ts)
d3arg.draw_node(node=…
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Hii!
I am trying to use parallel singer and it returns the following error:
/singer/singer-0.1.7-beta-linux-x86_64/convert_long_ARG.py", line 118, in
main()
/singer/singer-0.1.7-beta-linux-…
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Discussion at https://github.com/tskit-dev/tskit/issues/1566#issuecomment-1148407759
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Hi all,
I'm running into a "TSK_ERR_MUTATION_TIME_OLDER_THAN_PARENT_NODE" error when trying to recapitate a truncated tree sequence. I've attached [some code and a tree sequence](https://github.com…