This directory contains notebooks and extra data files for replicating SPEAR results and figures.
For a general vignette on running SPEAR, checkout frog_zebrafish_embryogenesis/Train SATURN.ipynb
For each integration you will need to run through the corrsponding *dataloader.ipynb first. This will require downloading large raw data files.
To fully replicate results you will need to run SPEAR 30 times for both frog/zebrafish embryogenesis and the 5 species AH atlas. This will generate many large files.