tutorials
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tskit-dev
A set of tutorials for msprime and tskit.
Hi When I tried to download the example data with `%load https://tskit.dev/tutorials/examples/download.py` I got this `SSLCertVerificationError` on Windows ``` SSLCertVerificationError Traceback (most recent call last) c:\users\xin\miniconda3\lib\urllib\request.py in do_open(self, http_class, req,...
The labels of all diagrams need to be updated, and some new ones need to be made for admixture + divergence.
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...
@nspope sent me this, which is a good core for a new tutorial on cross coalescence rates. Probably worth waiting until some of the core functionality (e.g. `rates_from_ecdf`) is implemented...
In working out an algorithm that wants to move back through time, it seemed helpful to do a simple explainer on iterating back in time - i.e., taking the haplotype...
@hyanwong I had a bash at the stats/analysis tutorial following your previous style. Let me know what you think. There are two outstanding TODO's in there: * tree sequence has...
