Jerome Kelleher
Jerome Kelleher
There's two notebooks (wfforward.ipynb and wfcython.ipynb) in the old-content/notebooks directory that need to be converted to jupyterbook format. Hopefully this can be reasonably automatic using [jupytext](https://github.com/mwouts/jupytext). The only concern is...
Simplify is a swiss-army knife operation - we should give a tutorial that explains how it works at a high-level and goes through some of the things you can do...
We'll want to have a tutorial for IBD related stuff at some point, so useful to be able to refer to it from tskit's docs. Add a stub here. I...
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 phylogenetics methods. It would be really...
Once we have direct numpy access to the tree arrays in Python (https://github.com/tskit-dev/tskit/issues/1299) I think we should be able to do quite performant traversal algorithms in python using numba. We...
People often need to run simulations with parameters drawn from some distribution. Add a simple example of this to the tutorial. Include an example where we draw times from a...
This section is to help users understand how to effectively run lots of simulations and how to analyse then. Can start by moving the current ``advanced features/replication`` section in there....
Probably don't need to keep this super up to date, just pin on something conservative so the build doesn't break randomly.
I put in the old-content directory in #12 as a way to keep the old content around while we're converting to jupyterbook. Once #14 is resolved, we can delete this...
Docs still says "sgkit: Statistical genetics toolkit in Python" https://sgkit-dev.github.io/sgkit/latest/