NetworkCommons: bridging data, knowledge, and methods to build and evaluate context-specific biological networks.
Where this comes from
- Record sourced from PubMed, PMID 39907203.
- Also identified by DOI 10.1093/bioinformatics/btaf048 and PMC identifier 11846666.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
We present NetworkCommons, a platform for integrating prior knowledge, omics data, and network inference methods, facilitating their usage and evaluation. NetworkCommons aims to be an infrastructure for the network biology community that supports the development of better methods and benchmarks, by enhancing interoperability and integration. NetworkCommons is implemented in Python and offers programmatic access to multiple omics datasets, network inference methods, and benchmarking setups. It is a free software, available at https://github.com/saezlab/networkcommons, and deposited in Zenodo at https://doi.org/10.5281/zenodo.14719118.
Medical subject headings
- Software
- Computational Biology
- Gene Regulatory Networks