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Whole-embryo lineage reconstruction with linajea

Posted on 2024-07-29 - 21:52 authored by Caroline Malin-Mayor

This collection provides access to the datasets and other artifacts for "Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations" (Malin-Mayor et al. 2023, DOI: https://doi.org/10.1038/s41587-022-01427-7).


The three datasets (drosophila, mouse, and zebrafish) and associated model weights and results are described in individual dataset items. 


This collection also provides access to singularity containers used to run the experiments in Malin-Mayor et al. 2023. The base container, available here, and linajea container, available here, provide a snapshot of the dependencies of the project at the time the experiments were conducted.


The source code for experiments and methods are hosted on GitHub.

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