NOTE: This is old software for inferring spatial histories from tree sequences. For the latest version of this software, see spacetrees: https://github.com/osmond-lab/spacetrees. The name sparg is now reserved for software that infers spatial histories from full ancestral recombination graphs: https://github.com/osmond-lab/sparg.
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spa gs pa gs pa rg gs pa
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Estimating dispersal rates and locating genetic ancestors with genome-wide genealogies
This is the software. For the paper, see https://github.com/mmosmond/sparg-ms.
You can install using pip
pip install sparg
See the tutorial for a demo on how to use. You can run the tutorial directly in your browser with 
python3 venv -m ~/.virtualenvs/sparg #make virtual environment
source ~/.virtualenvs/sparg/bin/activate #load virtual env
pip install -r requirements.in #install dependencies for tutorial (this is what Binder needs)
pip install jupyterlab #install jupyterlab
python -m ipykernel install --name=sparg #make virtual env available in jupyter
jupyter-lab tutorial/tutorial.ipynb #launch tutorial
Some code for importance sampling adapted from https://github.com/35ajstern/palm. Logo inspired by concrete poetry of bpNichol.