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:honeybee: BEELINE: Benchmarking gEnE reguLatory network Inference from siNgle-cEll transcriptomic data :honeybee:

Overview of BEELINE

This is the main repository for BEELINE. The documentation is available at: https://murali-group.github.io/Beeline/.

Quick setup:

We provided an example dataset under inputs/example/GSD/ and a corresponding configuration file necessary for running GRN inference using 12 methods described in BEELINE.

If you use BEELINE in your research, please cite:

Pratapa, A., Jalihal, A.P., Law, J.N., Bharadwaj, A., Murali, T. M. (2020) "Benchmarking algorithms for gene regulatory network inference from single-cell transcriptomic data." Nature Methods, 17, 147–154.

Link to the pubication: https://www.nature.com/articles/s41592-019-0690-6

The preprint version of this article is available at: https://doi.org/10.1101/642926

The repository for BoolODE is located at: https://github.com/Murali-group/BoolODE

The input datasets used in BEELINE are available at: https://doi.org/10.5281/zenodo.3378975

Twitter thread link: https://twitter.com/t_m_murali/status/1215302095601119234?s=20